Back to Long Tests report for BioC 3.19

This page was generated on 2024-07-06 23:55 -0400 (Sat, 06 Jul 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4708
palomino7Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4482
merida1macOS 12.7.4 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4512
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 6/33HostnameOS / ArchCHECK
biodbChebi 1.10.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-07-06 09:55 -0400 (Sat, 06 Jul 2024)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_19
git_last_commit: fad38a4
git_last_commit_date: 2024-04-30 11:37:31 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK  
palomino7Windows Server 2022 Datacenter / x64  OK  
merida1macOS 12.7.4 Monterey / x86_64  OK  

CHECK results for biodbChebi on merida1

To the developers/maintainers of the biodbChebi package:
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: biodbChebi
Version: 1.10.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.10.0.tar.gz
StartedAt: 2024-07-06 16:01:15 -0400 (Sat, 06 Jul 2024)
EndedAt: 2024-07-06 16:06:02 -0400 (Sat, 06 Jul 2024)
EllapsedTime: 286.9 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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Type 'license()' or 'licence()' for distribution details.

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Type 'contributors()' for more information and
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Type 'demo()' for some demos, 'help()' for on-line help, or
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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2024-07-06 16:02:15.190][biodb::testContext]
biodb.INFO [2024-07-06 16:02:15.194][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-06 16:02:15.196][biodb::testContext] Test context - Generic long tests
biodb.INFO [2024-07-06 16:02:15.197][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-06 16:02:15.199][biodb::testContext]
biodb.INFO [2024-07-06 16:02:15.207][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-07-06 16:02:15.211][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-06 16:02:15.223][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-06 16:02:15.224][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-06 16:02:15.226][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-06 16:02:15.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.233][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-06 16:02:15.272][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-06 16:02:15.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.278][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-06 16:02:15.279][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-06 16:02:15.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.285][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-06 16:02:15.286][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-06 16:02:15.288][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-06 16:02:15.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.305][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-06 16:02:15.307][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-06 16:02:15.308][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-06 16:02:15.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.313][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-06 16:02:15.314][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-06 16:02:15.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.318][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-06 16:02:15.320][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-06 16:02:15.321][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-06 16:02:15.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.325][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-06 16:02:15.327][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-06 16:02:15.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.332][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-06 16:02:15.333][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-06 16:02:15.335][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-06 16:02:15.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.339][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-06 16:02:15.341][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-06 16:02:15.342][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-06 16:02:15.343][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-06 16:02:15.345][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-06 16:02:15.346][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-06 16:02:15.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.351][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-06 16:02:15.352][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-06 16:02:15.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.357][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-06 16:02:15.358][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-06 16:02:15.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.363][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-06 16:02:15.364][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-06 16:02:15.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.369][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-06 16:02:15.371][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-06 16:02:15.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.376][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-06 16:02:15.377][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-06 16:02:15.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.382][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-06 16:02:15.383][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-06 16:02:15.399][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-06 16:02:15.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.404][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-06 16:02:15.406][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-06 16:02:15.407][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-06 16:02:15.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.415][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-06 16:02:15.461][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:15.484][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-06 16:02:15.485][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.486][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 16:02:15.488][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.489][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 16:02:15.491][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:15.492][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 16:02:15.493][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-06 16:02:15.495][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 16:02:15.496][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.497][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-06 16:02:15.498][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 16:02:15.500][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.501][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.502][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-06 16:02:15.502][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-06 16:02:15.502][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-06 16:02:15.502][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-06 16:02:15.502][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-06 16:02:15.504][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 16:02:15.505][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 16:02:15.506][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 16:02:15.507][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 16:02:15.508][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 16:02:15.510][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 16:02:15.511][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 16:02:15.512][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.514][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 16:02:15.515][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 16:02:15.516][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:15.517][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.519][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-06 16:02:15.521][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:15.523][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-06 16:02:15.524][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.525][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 16:02:15.526][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.528][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 16:02:15.529][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:15.530][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 16:02:15.531][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-06 16:02:15.533][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 16:02:15.534][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.535][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-06 16:02:15.537][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 16:02:15.538][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.539][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.541][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-06 16:02:15.541][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-06 16:02:15.541][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-06 16:02:15.541][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-06 16:02:15.541][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-06 16:02:15.542][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 16:02:15.543][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 16:02:15.544][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 16:02:15.546][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 16:02:15.547][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 16:02:15.548][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 16:02:15.549][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 16:02:15.550][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.552][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 16:02:15.553][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 16:02:15.554][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:15.555][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.557][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-06 16:02:15.559][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.560][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-06 16:02:15.562][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.563][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 16:02:15.564][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.566][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 16:02:15.567][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:15.569][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 16:02:15.572][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-06 16:02:15.574][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 16:02:15.582][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:15.583][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-06 16:02:15.585][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 16:02:15.586][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.587][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.588][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.590][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 16:02:15.591][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 16:02:15.592][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 16:02:15.593][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 16:02:15.594][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 16:02:15.595][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 16:02:15.597][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 16:02:15.598][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.599][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 16:02:15.600][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 16:02:15.601][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:15.603][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.604][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-06 16:02:15.606][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.608][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-06 16:02:15.609][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.610][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 16:02:15.611][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.613][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 16:02:15.614][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:15.615][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 16:02:15.616][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-06 16:02:15.618][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 16:02:15.619][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:15.620][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-06 16:02:15.621][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 16:02:15.622][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.624][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:15.625][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.626][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 16:02:15.627][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 16:02:15.629][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 16:02:15.630][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 16:02:15.631][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 16:02:15.632][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 16:02:15.633][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 16:02:15.635][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.636][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 16:02:15.637][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 16:02:15.638][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:15.639][self$setPropertyValue]
biodb.DEBUG[2024-07-06 16:02:15.644][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-06 16:02:15.645][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.742][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-06 16:02:15.747][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-06 16:02:15.749][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-06 16:02:15.751][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-06 16:02:15.753][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-06 16:02:15.754][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-06 16:02:15.756][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-06 16:02:15.758][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-06 16:02:15.760][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-06 16:02:15.761][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-06 16:02:15.763][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-06 16:02:15.765][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-06 16:02:15.767][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-06 16:02:15.768][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-06 16:02:15.770][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-06 16:02:15.772][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-06 16:02:15.774][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-06 16:02:15.775][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-06 16:02:15.777][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-06 16:02:15.779][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-06 16:02:15.781][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-06 16:02:15.782][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-06 16:02:15.784][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-06 16:02:15.786][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-06 16:02:15.788][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-06 16:02:15.789][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-06 16:02:15.791][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-06 16:02:15.793][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-06 16:02:15.795][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-06 16:02:15.796][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-06 16:02:15.798][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-06 16:02:15.800][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-06 16:02:15.801][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-06 16:02:15.803][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-06 16:02:15.805][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-06 16:02:15.807][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-06 16:02:15.808][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-06 16:02:15.810][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-06 16:02:15.812][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-06 16:02:15.813][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-06 16:02:15.815][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-06 16:02:15.817][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-06 16:02:15.819][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-06 16:02:15.821][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-06 16:02:15.823][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-06 16:02:15.829][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-06 16:02:15.831][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-06 16:02:15.833][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-06 16:02:15.834][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-06 16:02:15.836][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-06 16:02:15.838][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-06 16:02:15.840][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-06 16:02:15.841][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-06 16:02:15.843][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-06 16:02:15.845][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-06 16:02:15.846][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-06 16:02:15.848][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-06 16:02:15.850][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-06 16:02:15.851][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-06 16:02:15.853][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-06 16:02:15.855][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-06 16:02:15.856][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-06 16:02:15.858][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-06 16:02:15.860][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-06 16:02:15.862][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-06 16:02:15.863][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-06 16:02:15.865][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-06 16:02:15.867][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-06 16:02:15.868][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-06 16:02:15.870][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-06 16:02:15.872][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-06 16:02:15.874][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-06 16:02:15.875][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-06 16:02:15.877][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-06 16:02:15.879][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-06 16:02:15.880][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-06 16:02:15.882][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-06 16:02:15.884][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-06 16:02:15.885][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-06 16:02:15.887][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-06 16:02:15.889][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-06 16:02:15.891][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-06 16:02:15.892][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-06 16:02:15.900][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-06 16:02:15.902][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-07-06 16:02:15.906][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-06 16:02:15.907][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.909][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:15.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:15.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:15.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:15.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:15.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:15.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:15.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:15.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:15.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:15.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:15.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:15.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:15.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:15.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:15.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:15.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:15.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:15.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:15.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:15.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:15.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:15.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:15.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:15.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:15.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:15.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:15.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:16.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:16.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:16.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:16.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:16.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:16.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:16.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:16.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:16.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:16.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:16.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:16.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:16.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:16.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:16.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:16.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:16.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:16.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:16.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:16.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:16.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:16.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:16.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:16.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:16.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:16.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:16.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:16.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:16.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:16.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:16.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:16.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:16.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:16.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:16.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:16.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:16.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:16.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 16:02:16.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:16.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:16.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:16.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:16.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:16.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:16.051][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.19-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-06 16:02:16.069][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-06 16:02:16.071][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:16.073][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-06 16:02:16.074][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:16.075][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 16:02:16.076][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:16.078][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 16:02:16.079][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:16.080][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-06 16:02:16.081][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-06 16:02:16.083][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 16:02:16.084][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:16.085][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-06 16:02:16.086][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 16:02:16.088][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-06 16:02:16.088][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-06 16:02:16.088][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-06 16:02:16.088][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-06 16:02:16.088][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-06 16:02:16.088][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-06 16:02:16.088][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-06 16:02:16.088][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-06 16:02:16.088][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-06 16:02:16.088][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-06 16:02:16.088][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-06 16:02:16.089][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-06 16:02:16.091][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-06 16:02:16.091][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-06 16:02:16.091][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-06 16:02:16.092][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-06 16:02:16.093][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 16:02:16.094][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 16:02:16.095][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 16:02:16.096][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 16:02:16.097][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 16:02:16.099][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 16:02:16.100][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:16.100][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-06 16:02:16.101][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 16:02:16.102][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 16:02:16.103][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-06 16:02:16.105][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-06 16:02:16.105][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-06 16:02:16.113][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-06 16:02:16.115][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-06 16:02:16.118][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-06 16:02:16.120][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-06 16:02:16.122][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-06 16:02:16.124][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-06 16:02:16.151][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-06 16:02:16.153][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-06 16:02:16.157][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-06 16:02:16.162][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-06 16:02:16.167][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 16:02:16.169][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 16:02:16.170][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-06 16:02:16.172][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-06 16:02:16.183][biodb::testThat]
biodb.INFO [2024-07-06 16:02:16.184][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-07-06 16:02:16.185][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:02:16.186][biodb::testThat]
biodb.TRACE[2024-07-06 16:02:16.191][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.19-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-07-06 16:02:16.193][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:16.197][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:16.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:16.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:16.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:16.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:16.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:16.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:16.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:16.242][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.243][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.246][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.270][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:16.272][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:16.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.274][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.313][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:16.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:16.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.318][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:16.319][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:16.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.322][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.324][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:16.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:16.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.329][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:16.339][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:16.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.342][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.343][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:16.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:16.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.349][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:16.350][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:16.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.352][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:16.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:16.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.359][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:16.360][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:16.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.363][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.364][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:16.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:16.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.369][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:16.371][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.373][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.375][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:16.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.380][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.381][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.384][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.391][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:16.392][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:16.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.395][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.396][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:16.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:16.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.402][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:16.403][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:16.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.406][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.407][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:16.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:16.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.412][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:16.414][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:16.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.416][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.418][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:16.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:16.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:16.534][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-07-06 16:02:16.537][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:16.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:16.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.542][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:16.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:16.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.611][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:16.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:16.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:16.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:16.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.632][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 16:02:16.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 16:02:16.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.637][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 16:02:16.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 16:02:16.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.642][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-06 16:02:16.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-06 16:02:16.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.647][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-06 16:02:16.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-06 16:02:16.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.774][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.775][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.778][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:16.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:16.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.814][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.815][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.818][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:16.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.834][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:16.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:16.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:16.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:16.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.844][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:16.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:16.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.849][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:16.850][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:16.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.853][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:16.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:16.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.869][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:16.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:16.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.874][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:16.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:16.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.879][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:16.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:16.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.885][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:16.886][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:16.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.888][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.889][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:16.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:16.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.920][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.921][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.924][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:16.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.955][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.956][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.959][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:16.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.975][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:16.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:16.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.980][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:16.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:16.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.985][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:16.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:16.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:16.990][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:16.992][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:16.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:16.999][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.000][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:17.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:17.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.015][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.020][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.026][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.031][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.033][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.035][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.036][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.051][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.057][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.062][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.068][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.069][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.072][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.073][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.089][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:17.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:17.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.094][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:17.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:17.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.099][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:17.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:17.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.105][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:17.106][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:17.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.108][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.110][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:17.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:17.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.142][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.143][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.145][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.147][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.162][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:17.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:17.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.167][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:17.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:17.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.172][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:17.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:17.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.177][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:17.178][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:17.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.181][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.182][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:17.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:17.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.198][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.199][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.202][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.208][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:17.215][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:17.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.218][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.226][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:17.228][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:17.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.231][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.237][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:17.239][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:17.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.241][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.248][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.249][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.252][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.258][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.260][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.262][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.268][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.270][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.272][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.279][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.281][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.283][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.290][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.291][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.294][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.300][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:17.302][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:17.303][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.304][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.311][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:17.313][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:17.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.340][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.19-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2024-07-06 16:02:17.391][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:17.392][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:17.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:17.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:17.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:17.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:17.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:17.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:17.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:17.412][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.416][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.451][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:17.453][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:17.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.455][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.457][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:17.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:17.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.463][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:17.464][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:17.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.466][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.469][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:17.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:17.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.474][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:17.475][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:17.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.478][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:17.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:17.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.485][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.486][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.489][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.495][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.497][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.499][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.501][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:17.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.507][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:17.508][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.511][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.512][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:17.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.518][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.519][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.522][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.529][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:17.531][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:17.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.534][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.536][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:17.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:17.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.542][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:17.544][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.547][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.548][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:17.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:17.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.554][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:17.555][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:17.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.558][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.559][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:17.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:17.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:17.617][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2024-07-06 16:02:17.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:17.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:17.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:17.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:17.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.660][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.665][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:17.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.680][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 16:02:17.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 16:02:17.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.685][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 16:02:17.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 16:02:17.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.690][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-06 16:02:17.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-06 16:02:17.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.695][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-06 16:02:17.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-06 16:02:17.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.811][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.812][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.815][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:17.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:17.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.851][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.853][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.855][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:17.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.871][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:17.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:17.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:17.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:17.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.881][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:17.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:17.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.886][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:17.888][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:17.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.890][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:17.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:17.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.906][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:17.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:17.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.911][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:17.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:17.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.916][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:17.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:17.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.921][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:17.922][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:17.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.925][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.926][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:17.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:17.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.941][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:17.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.956][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:17.957][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.960][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.961][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:17.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:17.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.991][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.992][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.994][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:17.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:17.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:17.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.025][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.027][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.029][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.045][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.055][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.060][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.065][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.066][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.068][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.070][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.084][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.089][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.094][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.099][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.100][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.103][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.104][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.119][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.124][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.129][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.134][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.135][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.137][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.138][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.153][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.158][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.163][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.168][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.170][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.172][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.173][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.204][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.205][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.207][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.235][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.240][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.241][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.244][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.245][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.266][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.269][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.275][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.277][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.279][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.285][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:18.287][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:18.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.289][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.295][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.296][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.299][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.305][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.306][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.309][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.315][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.316][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.319][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.325][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.326][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.329][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.335][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.336][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.337][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.338][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.345][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.346][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.349][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.356][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:18.358][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:18.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.361][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.367][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.368][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.371][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.377][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.19-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2024-07-06 16:02:18.379][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:18.381][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:18.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:18.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:18.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:18.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:18.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:18.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:18.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:18.397][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.398][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.401][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.408][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.409][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.412][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.413][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.419][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:18.420][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:18.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.423][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.424][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:18.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:18.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.429][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.431][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.433][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.440][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.441][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.443][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.450][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.451][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.453][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.455][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.460][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:18.461][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.463][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.465][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:18.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.470][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.471][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.478][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.485][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:18.486][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:18.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.488][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.490][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:18.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:18.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.495][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:18.497][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.499][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.500][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:18.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.505][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.506][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.509][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.510][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:18.564][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2024-07-06 16:02:18.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.571][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.581][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.595][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 16:02:18.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 16:02:18.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.600][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 16:02:18.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 16:02:18.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.605][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-06 16:02:18.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-06 16:02:18.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.610][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-06 16:02:18.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-06 16:02:18.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:18.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.708][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.710][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.712][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:18.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:18.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.728][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.733][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.738][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.743][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.744][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.747][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.748][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:18.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:18.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.778][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.779][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.782][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:18.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:18.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.813][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.814][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.817][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:18.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.833][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.838][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.843][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.848][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.849][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.851][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.852][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:18.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.886][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.887][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.890][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:18.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.920][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.922][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.924][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:18.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.939][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.944][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.949][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.954][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.956][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.958][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.959][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:18.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:18.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.974][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.979][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.984][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.989][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.990][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.992][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:18.994][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:18.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:18.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:19.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:19.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.013][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:19.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:19.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.018][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:19.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:19.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.023][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:19.024][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:19.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.027][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:19.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:19.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.043][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:19.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:19.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.048][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:19.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:19.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.052][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:19.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:19.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.057][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:19.059][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:19.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.061][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.062][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:19.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:19.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.082][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:19.083][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:19.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.085][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.091][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:19.093][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:19.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.095][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.101][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:19.102][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:19.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.105][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.110][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:19.112][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:19.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.114][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:19.121][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:19.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.124][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.130][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:19.131][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:19.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.134][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.140][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:19.141][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:19.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.144][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.150][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:19.151][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:19.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.154][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.160][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:02:19.162][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:19.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.164][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.170][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:19.172][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:19.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.174][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:19.181][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:19.182][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:19.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:19.184][ef$get] fields variable is a list.
biodb.INFO [2024-07-06 16:02:19.195][biodb::testThat]
biodb.INFO [2024-07-06 16:02:19.196][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-07-06 16:02:19.197][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:02:19.198][biodb::testThat]
biodb.DEBUG[2024-07-06 16:02:19.201][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2024-07-06 16:02:19.208][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-07-06 16:02:19.213][cch$loadFileContent] Trying to load 3 files from cache: [3]: "15440, 2528, 7799".
biodb.TRACE[2024-07-06 16:02:19.246][cch$loadFileContent] file.exist = [3]: "FALSE, TRUE, TRUE".
biodb.TRACE[2024-07-06 16:02:19.250][loadFileContents] Loaded 2 files from cache: [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2024-07-06 16:02:19.252][conn$getEntryContent] 2 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:19.253][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:19.255][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:19.256][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:19.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:19.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:19.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:19.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:19.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:19.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:19.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:19.276][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
biodb.DEBUG[2024-07-06 16:02:19.304][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:19.305][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:19.307][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
biodb.TRACE[2024-07-06 16:02:19.910][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
biodb.DEBUG[2024-07-06 16:02:20.370][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:20.373][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5c6fb88c946e8568cc03c0d73dc5603e.content"
biodb.TRACE[2024-07-06 16:02:20.393][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5c6fb88c946e8568cc03c0d73dc5603e.request"
biodb.TRACE[2024-07-06 16:02:20.397][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml"
biodb.DEBUG[2024-07-06 16:02:20.399][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:20.401][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-07-06 16:02:20.402][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:20.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:20.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:20.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:20.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:20.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:20.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:20.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:20.420][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.421][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.423][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.435][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.442][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:20.443][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:20.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.446][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.447][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:20.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:20.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.452][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:20.453][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:20.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.456][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.457][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:20.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:20.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.462][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:20.464][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:20.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.466][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.468][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:20.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:20.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.473][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:20.474][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:20.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.476][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:20.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:20.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.483][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:20.484][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:20.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.487][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.488][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:20.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:20.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.493][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:20.495][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:20.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.497][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.499][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:20.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:20.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.504][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:20.505][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:20.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.507][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:20.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:20.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.514][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:20.515][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:20.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.518][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.519][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:20.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:20.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.525][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:20.526][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:20.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.528][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.530][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:20.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:20.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.535][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:20.536][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:20.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.539][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.540][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:20.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:20.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:20.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:20.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:20.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:20.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:20.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:20.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:20.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:20.601][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.603][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.605][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.613][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:20.614][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:20.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.617][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.618][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:20.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:20.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.624][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:20.625][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:20.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.628][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.629][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:20.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:20.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.635][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:20.636][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:20.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.639][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:20.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:20.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.646][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:20.647][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:20.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.649][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:20.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:20.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.656][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:20.657][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:20.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.660][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.661][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:20.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:20.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.667][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:20.668][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:20.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.670][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.672][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:20.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:20.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.677][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:20.678][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:20.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.681][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:20.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:20.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.688][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:20.689][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:20.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.692][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.693][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:20.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:20.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.699][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:20.700][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:20.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.702][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.704][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:20.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:20.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.709][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:20.710][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:20.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.712][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.714][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:20.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:20.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:20.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:20.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:20.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:20.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:20.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:20.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:20.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:20.781][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.783][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.785][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.792][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:20.793][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:20.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.795][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.797][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:20.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:20.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.802][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:20.803][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:20.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.806][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:20.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:20.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.813][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:20.814][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:20.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.817][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.819][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:20.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:20.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.825][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:20.827][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:20.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.829][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:20.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:20.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.836][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:20.838][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:20.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.840][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.842][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:20.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:20.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.848][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:20.849][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:20.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.852][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.853][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:20.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:20.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.858][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:20.860][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:20.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.862][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:20.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:20.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.869][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:20.870][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:20.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.872][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.874][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:20.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:20.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.879][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:20.881][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:20.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.884][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.886][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:20.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:20.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.891][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:20.892][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:20.893][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.895][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.896][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:20.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:20.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:20.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:20.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:20.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:20.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:20.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:21.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:21.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:21.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:21.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:21.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:21.009][self$createEntryFromContent] Accession numbers: 15440, 2528, 7799.
biodb.TRACE[2024-07-06 16:02:21.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-07-06 16:02:21.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-07-06 16:02:21.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:21.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-07-06 16:02:21.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-07-06 16:02:21.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:21.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-07-06 16:02:21.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-07-06 16:02:21.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:21.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-07-06 16:02:21.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-07-06 16:02:21.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:21.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-07-06 16:02:21.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-07-06 16:02:21.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:21.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-07-06 16:02:21.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-07-06 16:02:21.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:21.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-07-06 16:02:21.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-07-06 16:02:21.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:21.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-07-06 16:02:21.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-07-06 16:02:21.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:21.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-07-06 16:02:21.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-07-06 16:02:21.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-06 16:02:21.076][biodb::testThat]
biodb.INFO [2024-07-06 16:02:21.077][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-07-06 16:02:21.078][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:02:21.080][biodb::testThat]
biodb.TRACE[2024-07-06 16:02:21.083][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:21.085][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:21.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.087][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:21.089][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-07-06 16:02:21.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:21.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:21.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:21.135][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:21.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:21.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:21.140][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:21.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:21.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:21.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:21.148][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-07-06 16:02:21.179][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-06 16:02:21.183][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:02:21.206][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-06 16:02:21.207][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:02:21.328][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-06 16:02:21.332][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:02:21.354][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:21.355][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:21.380][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:02:21.897][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:02:22.428][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:22.431][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-07-06 16:02:22.455][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-07-06 16:02:22.500][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-07-06 16:02:22.515][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:22.516][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:22.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.519][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.520][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:22.521][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:22.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.524][ef$get] fields variable is a list.
biodb.INFO [2024-07-06 16:02:22.529][biodb::testThat]
biodb.INFO [2024-07-06 16:02:22.530][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-07-06 16:02:22.531][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:02:22.533][biodb::testThat]
biodb.TRACE[2024-07-06 16:02:22.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:22.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:22.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.570][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:22.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:22.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.575][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:22.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:22.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:22.661][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:02:22.665][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:02:22.666][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-06 16:02:22.668][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:02:22.670][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-07-06 16:02:22.690][biodb::testThat]
biodb.INFO [2024-07-06 16:02:22.692][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-07-06 16:02:22.693][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:02:22.694][biodb::testThat]
biodb.TRACE[2024-07-06 16:02:22.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:22.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:22.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:22.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:22.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:22.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:22.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:22.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:22.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:22.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:22.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:22.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:22.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.736][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 16:02:22.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 16:02:22.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.741][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 16:02:22.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 16:02:22.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.746][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-06 16:02:22.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-06 16:02:22.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.751][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-06 16:02:22.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-06 16:02:22.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:22.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:22.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:22.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:22.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.778][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:22.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:22.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.802][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:22.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:22.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:22.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:22.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:22.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:22.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.817][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 16:02:22.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 16:02:22.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.822][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 16:02:22.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 16:02:22.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.826][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-06 16:02:22.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-06 16:02:22.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:22.831][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-06 16:02:22.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-06 16:02:22.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:22.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-06 16:02:22.935][biodb::testThat]
biodb.INFO [2024-07-06 16:02:22.936][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-07-06 16:02:22.937][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:02:22.938][biodb::testThat]
biodb.INFO [2024-07-06 16:02:22.950][biodb::testThat]
biodb.INFO [2024-07-06 16:02:22.951][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-07-06 16:02:22.952][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:02:22.954][biodb::testThat]
biodb.INFO [2024-07-06 16:02:22.966][biodb::testThat]
biodb.INFO [2024-07-06 16:02:22.968][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-07-06 16:02:22.969][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:02:22.970][biodb::testThat]
biodb.DEBUG[2024-07-06 16:02:22.975][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-07-06 16:02:23.489][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-07-06 16:02:24.286][biodb::testThat]
biodb.INFO [2024-07-06 16:02:24.288][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-07-06 16:02:24.289][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:02:24.290][biodb::testThat]
biodb.DEBUG[2024-07-06 16:02:24.699][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2024-07-06 16:02:25.108][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:25.109][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:25.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:25.112][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:25.113][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:25.114][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:25.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:25.116][ef$get] fields variable is a list.
biodb.INFO [2024-07-06 16:02:25.119][biodb::testThat]
biodb.INFO [2024-07-06 16:02:25.120][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-07-06 16:02:25.121][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:02:25.122][biodb::testThat]
biodb.TRACE[2024-07-06 16:02:25.136][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:25.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:25.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:25.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:25.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:25.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:25.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:25.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:25.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:25.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:25.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:25.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:25.295][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:02:25.300][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:02:25.301][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-06 16:02:25.303][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:02:25.305][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-06 16:02:25.390][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:02:25.394][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:02:25.396][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-06 16:02:25.397][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:02:25.399][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-07-06 16:02:25.416][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:02:25.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:02:25.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:25.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:25.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:25.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:25.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:25.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:25.432][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:25.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:25.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:25.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:25.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:25.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:25.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:25.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:25.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:25.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:25.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:25.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:25.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:25.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:25.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:25.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:25.460][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:02:25.464][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:25.466][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:25.468][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:02:25.843][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:02:26.211][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:26.214][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-07-06 16:02:26.386][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-07-06 16:02:26.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:26.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:26.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:26.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:26.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:26.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:26.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:26.652][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-07-06 16:02:26.718][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:26.721][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-07-06 16:02:26.722][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:26.723][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:26.725][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:26.726][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:26.727][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:26.728][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:26.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:26.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:26.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:26.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:26.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:26.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:26.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:26.759][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2024-07-06 16:02:26.762][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:26.763][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:26.765][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2024-07-06 16:02:27.140][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2024-07-06 16:02:27.520][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:27.523][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2024-07-06 16:02:27.587][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2024-07-06 16:02:27.598][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2024-07-06 16:02:27.600][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:27.601][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:27.603][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:27.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:27.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:27.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:27.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:27.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:27.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:27.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:27.619][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:27.620][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:27.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.623][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:27.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:27.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.629][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:27.630][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:27.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.633][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.634][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:27.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:27.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.639][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:27.640][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:27.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.643][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.645][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:27.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:27.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.650][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:27.651][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:27.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.653][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:27.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:27.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.660][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:27.661][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:27.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.663][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.665][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:27.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:27.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.670][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:27.671][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:27.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.674][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.675][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:27.676][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:27.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.679][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.680][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:27.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:27.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.685][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:27.687][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:27.688][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.689][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:27.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:27.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.695][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:27.697][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:27.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.699][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:27.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:27.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.706][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:27.707][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:27.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.709][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.711][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:27.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:27.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.716][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:27.717][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:27.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.720][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.721][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:27.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:27.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:27.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:27.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:27.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:27.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:27.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:27.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:27.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:27.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:27.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:27.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:27.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:27.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:27.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:27.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:27.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:27.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:27.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:27.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:27.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:27.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:27.782][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-07-06 16:02:27.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:27.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:27.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:27.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:27.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:27.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:27.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:27.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:27.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:27.810][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:02:27.814][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:27.816][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:27.818][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:02:28.197][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:02:28.570][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:28.573][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-07-06 16:02:28.578][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-07-06 16:02:28.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:28.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:28.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:28.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:28.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:28.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:28.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:28.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:28.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:28.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:28.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:28.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:28.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:28.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:28.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:28.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:28.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:28.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:28.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:28.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:28.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:28.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:28.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:28.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:28.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:28.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:28.653][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-07-06 16:02:28.654][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:28.656][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-07-06 16:02:28.658][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:28.659][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:28.660][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:28.662][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:28.663][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:28.664][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:28.667][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:28.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:28.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:28.676][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:28.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:28.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:28.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:28.681][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2024-07-06 16:02:28.684][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:28.686][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:28.688][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2024-07-06 16:02:29.061][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2024-07-06 16:02:29.437][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:29.439][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2024-07-06 16:02:29.481][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2024-07-06 16:02:29.486][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2024-07-06 16:02:29.489][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:29.491][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:29.494][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:29.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:29.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:29.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:29.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:29.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:29.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:29.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:29.511][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:29.513][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:29.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.515][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:29.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:29.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.521][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:29.523][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:29.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.525][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.526][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:29.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:29.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.531][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:29.533][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:29.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.535][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.537][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:29.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:29.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.542][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:29.543][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:29.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.545][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:29.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:29.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.552][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:29.553][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:29.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.555][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:29.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:29.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.570][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:29.571][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:29.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.574][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.575][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:29.577][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.579][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.581][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:29.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.586][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:29.587][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:29.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.590][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:29.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:29.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.597][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:29.598][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:29.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.600][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:29.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:29.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.607][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:29.608][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:29.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.611][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.612][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:29.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:29.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.617][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:29.619][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:29.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.621][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.623][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:29.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:29.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:29.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:29.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:29.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:29.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:29.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:29.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:29.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:29.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:29.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:29.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:29.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:29.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:29.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:29.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:29.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:29.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:29.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:29.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:29.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:29.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:29.682][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-07-06 16:02:29.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:29.727][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:02:29.731][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:02:29.733][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-06 16:02:29.734][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:02:29.736][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-06 16:02:29.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:29.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:29.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:29.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:29.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:29.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:29.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:29.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:29.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:29.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:29.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:29.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:29.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:29.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:29.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:29.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:29.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:29.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:29.782][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-07-06 16:02:29.783][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:29.785][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-07-06 16:02:29.787][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:29.788][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:29.790][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:29.791][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:29.792][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:29.794][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:29.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:29.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:29.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:29.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:29.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:29.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:29.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:29.811][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2024-07-06 16:02:29.815][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:29.816][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:29.818][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2024-07-06 16:02:30.198][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2024-07-06 16:02:30.593][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:30.595][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2024-07-06 16:02:30.600][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2024-07-06 16:02:30.604][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2024-07-06 16:02:30.606][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:30.607][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:30.609][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:30.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:30.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:30.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:30.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:30.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:30.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:30.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:30.627][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:30.628][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:30.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.631][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:30.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:30.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.646][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:30.648][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:30.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.651][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.652][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:30.654][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:30.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.656][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.658][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:30.659][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:30.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.662][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.663][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:30.665][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:30.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.668][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.670][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:30.671][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:30.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.674][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.676][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:30.678][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:30.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.681][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.682][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:30.684][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:30.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.686][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.688][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:30.689][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:30.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.691][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.693][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:30.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:30.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.698][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:30.699][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:30.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.701][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.703][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:30.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:30.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.708][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:30.709][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:30.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.712][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:30.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:30.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:30.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:30.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:30.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:30.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:30.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:30.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:30.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:30.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:30.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:30.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:30.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:30.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:30.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:30.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:30.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:30.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:30.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:30.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:30.763][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-07-06 16:02:30.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:30.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:30.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:30.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:30.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:30.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:30.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:30.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:30.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:30.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:30.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:30.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:30.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:30.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:30.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:30.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:30.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:30.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:30.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:30.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:30.807][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-07-06 16:02:30.808][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:30.810][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-07-06 16:02:30.811][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:30.813][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:30.814][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:30.815][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:30.817][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:30.818][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:30.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:30.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:30.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:30.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:30.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:30.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:30.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:30.834][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2024-07-06 16:02:30.838][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:30.839][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:30.841][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2024-07-06 16:02:31.217][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2024-07-06 16:02:31.597][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:31.600][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2024-07-06 16:02:31.606][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2024-07-06 16:02:31.609][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2024-07-06 16:02:31.612][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:31.614][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:31.615][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:31.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:31.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:31.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:31.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:31.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:31.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:31.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:31.634][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:31.636][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:31.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.638][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:31.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:31.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.645][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:31.646][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:31.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.649][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.650][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:31.652][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:31.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.654][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.656][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:31.657][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:31.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.660][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.661][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:31.662][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:31.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.665][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.666][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:31.667][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:31.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.670][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.671][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:31.673][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:31.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.675][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.676][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:31.678][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:31.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.680][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.682][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:31.683][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:31.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.685][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.688][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:31.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:31.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.701][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:31.702][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:31.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.705][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.706][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:31.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:31.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.711][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:31.713][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:31.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.715][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:31.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:31.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:31.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:31.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:31.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:31.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:31.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:31.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:31.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:31.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:31.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:31.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:31.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:31.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:31.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:31.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:31.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:31.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:31.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:31.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:31.766][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-07-06 16:02:31.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:31.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:31.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:31.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:31.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:31.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:31.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:31.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:31.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:31.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:31.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:31.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:31.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:31.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:31.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:31.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:31.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:31.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:31.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:31.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:31.804][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-07-06 16:02:31.805][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:31.807][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-07-06 16:02:31.809][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:31.810][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:31.812][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:31.813][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:31.814][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:31.815][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:31.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:31.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:31.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:31.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:31.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:31.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:31.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:31.836][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2024-07-06 16:02:31.840][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:31.841][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:31.843][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2024-07-06 16:02:32.227][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2024-07-06 16:02:32.609][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:32.612][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2024-07-06 16:02:32.650][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2024-07-06 16:02:32.654][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2024-07-06 16:02:32.656][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:32.658][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:32.660][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:32.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:32.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:32.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:32.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:32.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:32.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:32.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:32.680][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:32.681][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:32.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.684][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:32.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:32.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.690][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:32.692][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:32.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.694][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.695][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:32.697][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:32.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.699][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.701][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:32.702][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:32.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.704][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.706][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:32.707][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:32.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.710][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.711][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:32.712][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:32.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.715][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.716][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:32.718][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:32.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.720][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.722][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:32.723][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:32.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.726][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.727][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:32.729][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:32.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.731][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.733][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:32.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:32.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.738][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:32.739][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:32.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.742][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.743][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:32.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:32.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.748][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:32.750][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:32.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.752][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:32.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:32.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:32.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:32.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:32.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:32.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:32.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:32.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:32.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:32.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:32.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:32.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:32.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:32.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:32.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:32.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:32.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:32.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:32.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:32.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:32.820][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-07-06 16:02:32.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:32.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:32.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:32.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:32.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:32.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:32.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:32.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:32.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:32.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:32.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:32.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:32.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:32.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:32.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:32.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:32.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:32.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:32.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:32.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:32.859][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-07-06 16:02:32.861][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:32.863][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-07-06 16:02:32.864][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:32.865][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:32.867][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:32.868][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:32.869][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:32.871][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:32.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:32.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:32.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:32.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:32.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:32.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:32.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:32.887][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2024-07-06 16:02:32.891][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:32.892][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:32.894][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2024-07-06 16:02:33.271][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2024-07-06 16:02:33.695][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:33.698][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2024-07-06 16:02:33.773][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2024-07-06 16:02:33.776][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2024-07-06 16:02:33.779][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:33.780][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:33.782][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:33.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:33.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:33.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:33.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:33.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:33.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:33.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:33.799][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:33.804][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:33.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.810][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:33.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:33.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.817][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:33.818][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:33.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.821][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.822][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:33.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:33.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.827][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:33.828][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:33.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.831][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.833][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:33.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:33.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.838][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:33.839][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:33.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.841][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.843][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:33.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:33.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.848][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:33.849][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:33.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.851][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:33.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:33.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.858][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:33.859][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:33.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.862][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.863][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:33.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:33.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.868][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:33.870][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:33.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.872][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.873][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:33.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:33.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.878][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:33.880][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:33.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.882][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:33.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:33.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.889][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:33.890][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:33.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.892][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.894][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:33.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:33.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.900][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:33.901][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:33.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.903][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.905][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:33.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:33.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.910][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:33.911][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:33.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.913][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.915][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:33.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:33.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:33.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:33.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:33.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:33.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:33.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:33.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:33.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:33.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:33.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:33.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:33.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:33.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:33.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:33.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:33.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:33.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:33.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:33.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:33.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:33.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:33.975][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-07-06 16:02:33.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:33.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:33.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:33.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:33.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:33.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:33.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:33.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:33.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:33.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:33.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:33.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:34.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:34.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:34.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:34.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:34.009][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-07-06 16:02:34.010][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:34.012][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-07-06 16:02:34.014][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:34.015][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:34.017][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:34.018][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:34.019][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:34.020][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:34.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:34.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:34.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:34.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:34.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:34.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:34.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:34.037][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2024-07-06 16:02:34.040][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:34.042][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:34.043][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2024-07-06 16:02:34.418][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2024-07-06 16:02:34.789][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:34.792][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2024-07-06 16:02:34.851][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2024-07-06 16:02:34.854][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2024-07-06 16:02:34.856][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:34.858][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:34.859][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:34.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:34.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:34.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:34.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:34.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:34.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:34.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:34.875][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:34.877][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:34.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.879][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:34.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:34.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.886][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:34.892][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:34.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.897][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.899][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:34.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:34.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.904][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:34.905][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:34.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.907][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.909][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:34.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:34.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.914][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:34.915][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:34.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.918][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.919][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:34.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:34.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.924][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:34.926][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:34.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.928][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:34.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:34.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.934][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:34.936][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:34.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.938][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.940][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:34.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:34.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.945][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:34.946][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:34.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.948][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.950][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:34.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:34.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.955][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:34.956][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:34.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.958][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:34.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:34.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.965][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:34.966][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:34.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.969][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.970][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:34.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:34.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.975][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:34.977][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:34.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.979][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.981][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:34.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:34.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.986][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:34.987][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:34.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.989][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.991][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:34.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:34.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:34.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:34.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:34.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:34.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:35.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:35.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:35.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:35.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:35.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:35.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:35.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:35.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:35.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:35.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:35.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:35.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:35.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:35.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:35.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:35.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:35.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:35.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:35.050][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-07-06 16:02:35.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:35.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:35.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:35.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:35.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:35.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:35.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:35.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:35.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:35.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:35.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:35.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:35.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:35.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:35.079][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-07-06 16:02:35.080][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:35.082][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-07-06 16:02:35.083][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:35.085][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:35.086][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:35.087][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:35.088][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:35.090][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:35.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:35.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:35.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:35.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:35.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:35.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:35.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:35.106][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2024-07-06 16:02:35.110][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:35.111][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:35.113][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2024-07-06 16:02:35.487][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2024-07-06 16:02:35.864][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:35.867][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2024-07-06 16:02:35.891][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2024-07-06 16:02:35.894][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2024-07-06 16:02:35.896][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:35.898][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:35.899][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:35.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:35.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:35.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:35.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:35.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:35.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:35.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:35.916][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:35.918][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:35.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.920][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:35.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:35.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.927][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:35.928][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:35.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.931][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.932][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:35.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:35.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.938][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:35.947][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:35.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.950][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.952][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:35.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:35.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.957][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:35.958][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:35.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.961][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:35.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:35.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.967][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:35.969][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:35.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.971][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.973][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:35.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:35.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.978][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:35.979][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:35.981][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.982][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.984][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:35.985][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:35.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.987][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.989][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:35.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:35.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.994][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:35.995][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:35.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:35.998][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:35.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:36.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:36.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.005][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:36.006][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:36.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.009][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.010][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:36.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:36.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.016][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:36.017][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:36.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.020][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.021][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:36.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:36.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.026][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:36.027][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:36.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.030][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.031][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:36.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:36.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:36.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:36.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:36.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:36.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:36.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:36.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:36.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:36.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:36.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:36.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:36.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:36.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:36.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:36.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:36.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:36.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:36.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:36.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:36.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:36.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:36.095][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-07-06 16:02:36.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:36.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:36.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:36.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:36.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:36.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:36.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:36.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:36.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:36.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:36.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:36.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:36.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:36.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:36.124][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-07-06 16:02:36.126][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:36.128][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-07-06 16:02:36.129][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:36.131][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:36.132][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:36.133][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:36.135][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:36.136][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:36.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:36.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:36.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:36.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:36.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:36.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:36.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:36.152][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2024-07-06 16:02:36.156][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:36.157][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:36.159][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2024-07-06 16:02:36.535][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2024-07-06 16:02:36.922][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:36.924][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2024-07-06 16:02:36.929][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2024-07-06 16:02:36.932][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2024-07-06 16:02:36.935][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:36.936][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:36.937][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:36.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:36.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:36.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:36.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:36.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:36.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:36.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:36.955][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:36.956][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:36.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.959][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:36.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:36.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.965][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:36.967][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:36.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.969][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.971][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:36.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:36.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.976][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:36.977][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:36.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.980][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.981][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:36.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:36.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:36.987][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:36.988][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:36.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:36.990][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.000][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:37.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:37.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.006][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:37.007][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:37.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.010][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:37.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:37.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.016][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:37.018][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:37.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.020][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.022][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:37.024][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:37.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.026][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.028][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:37.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:37.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.033][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:37.034][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:37.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.036][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:37.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:37.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.043][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:37.044][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:37.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.047][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.048][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:37.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:37.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.053][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:37.055][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:37.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.057][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.059][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:37.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:37.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.064][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:37.065][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:37.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.067][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.069][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:37.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:37.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:37.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:37.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:37.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:37.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:37.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:37.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:37.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:37.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:37.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:37.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:37.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:37.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:37.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:37.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:37.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:37.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:37.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:37.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:37.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:37.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:37.124][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-07-06 16:02:37.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:37.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:37.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:37.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:37.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:37.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:37.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:37.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:37.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:37.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:37.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:37.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:37.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:37.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:37.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:37.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:37.164][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-07-06 16:02:37.165][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:37.167][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-07-06 16:02:37.169][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:37.170][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:37.172][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:37.173][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:37.175][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:37.176][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:37.179][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:37.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:37.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:37.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:37.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:37.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:37.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:37.193][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2024-07-06 16:02:37.197][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:37.198][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:37.200][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2024-07-06 16:02:37.745][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2024-07-06 16:02:38.128][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:38.131][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2024-07-06 16:02:38.135][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2024-07-06 16:02:38.139][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2024-07-06 16:02:38.141][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:38.143][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:38.144][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:38.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:38.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:38.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:38.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:38.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:38.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:38.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:38.160][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:38.162][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:38.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.164][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:38.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:38.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.170][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:38.172][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:38.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.174][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.176][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:38.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:38.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.181][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:38.182][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:38.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.184][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.186][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:38.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:38.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.191][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:38.192][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:38.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.195][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:38.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:38.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.201][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:38.202][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:38.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.205][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:38.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:38.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.212][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:38.221][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:38.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.224][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.225][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:38.227][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:38.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.229][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.231][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:38.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:38.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.236][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:38.237][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:38.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.239][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:38.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:38.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.246][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:38.247][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:38.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.249][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.251][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:38.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:38.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.256][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:38.257][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:38.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.260][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.261][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:38.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:38.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.266][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:38.268][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:38.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.270][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.271][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:38.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:38.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:38.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:38.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:38.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:38.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:38.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:38.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:38.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:38.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:38.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:38.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:38.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:38.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:38.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:38.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:38.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:38.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:38.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:38.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:38.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:38.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:38.325][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-07-06 16:02:38.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:38.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:38.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:38.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:38.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:38.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:38.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:38.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:38.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:38.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:38.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:38.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:38.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:38.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:38.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:38.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:38.354][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-07-06 16:02:38.359][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:38.361][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-07-06 16:02:38.363][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:38.364][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:38.366][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:38.367][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:38.368][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:38.369][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:38.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:38.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:38.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:38.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:38.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:38.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:38.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:38.386][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2024-07-06 16:02:38.390][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:38.391][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:38.393][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2024-07-06 16:02:38.768][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2024-07-06 16:02:39.138][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:39.140][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2024-07-06 16:02:39.145][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2024-07-06 16:02:39.148][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2024-07-06 16:02:39.150][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:39.152][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:39.153][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:39.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:39.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:39.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:39.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:39.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:39.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:39.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:39.171][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:39.173][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:39.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.175][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:39.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:39.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.182][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:39.183][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:39.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.186][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.187][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:39.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:39.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.192][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:39.194][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:39.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.196][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.198][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:39.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:39.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.203][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:39.204][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:39.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.206][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:39.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:39.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.213][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:39.214][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:39.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.217][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:39.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:39.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.223][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:39.225][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:39.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.227][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.229][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:39.230][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:39.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.232][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.234][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:39.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:39.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.239][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:39.240][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:39.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.247][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:39.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:39.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.257][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:39.259][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:39.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.261][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:39.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:39.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.268][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:39.269][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:39.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.271][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.273][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:39.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:39.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.278][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:39.279][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:39.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.282][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.283][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:39.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:39.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:39.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:39.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:39.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:39.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:39.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:39.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:39.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:39.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:39.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:39.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:39.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:39.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:39.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:39.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:39.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:39.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:39.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:39.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:39.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:39.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:39.339][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-07-06 16:02:39.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:39.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:39.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:39.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:39.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:39.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:39.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:39.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:39.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:39.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:39.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:39.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:39.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:39.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:39.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:39.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:39.368][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-07-06 16:02:39.369][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:39.371][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-07-06 16:02:39.373][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:39.374][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:39.376][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:39.377][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:39.378][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:39.379][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:39.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:39.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:39.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:39.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:39.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:39.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:39.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:39.401][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2024-07-06 16:02:39.405][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:39.406][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:39.408][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2024-07-06 16:02:39.777][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2024-07-06 16:02:40.151][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:40.154][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2024-07-06 16:02:40.159][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2024-07-06 16:02:40.162][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2024-07-06 16:02:40.164][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:40.166][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:40.167][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:40.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:40.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:40.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:40.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:40.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:40.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:40.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:40.184][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:40.185][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:40.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.188][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:40.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:40.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.194][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:40.196][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:40.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.198][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.200][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:40.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:40.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.205][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:40.206][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:40.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.209][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.210][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:40.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:40.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.215][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:40.217][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:40.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.219][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.220][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:40.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:40.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.226][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:40.227][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:40.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.229][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.231][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:40.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:40.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.236][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:40.237][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:40.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.240][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.241][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:40.243][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:40.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.245][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.247][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:40.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:40.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.252][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:40.253][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:40.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.256][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:40.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:40.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.263][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:40.264][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:40.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.266][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.268][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:40.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:40.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.274][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:40.283][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:40.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.286][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.288][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:40.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:40.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.293][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:40.295][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:40.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.297][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.299][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:40.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:40.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:40.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:40.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:40.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:40.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:40.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:40.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:40.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:40.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:40.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:40.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:40.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:40.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:40.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:40.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:40.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:40.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:40.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:40.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:40.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:40.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:40.356][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-07-06 16:02:40.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:40.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:40.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:40.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:40.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:40.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:40.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:40.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:40.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:40.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:40.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:40.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:40.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:40.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:40.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:40.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:40.387][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-07-06 16:02:40.388][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:40.391][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-07-06 16:02:40.392][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:40.394][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:40.395][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:40.397][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:40.398][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:40.399][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:40.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:40.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:40.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:40.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:40.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:40.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:40.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:40.416][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2024-07-06 16:02:40.420][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:40.421][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:40.423][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2024-07-06 16:02:40.798][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2024-07-06 16:02:41.178][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:41.181][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2024-07-06 16:02:41.186][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2024-07-06 16:02:41.190][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2024-07-06 16:02:41.192][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:41.193][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:41.195][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:41.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:41.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:41.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:41.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:41.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:41.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:41.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:41.212][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:41.213][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:41.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.215][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:41.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:41.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.222][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:41.223][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:41.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.225][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.227][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:41.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:41.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.232][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:41.233][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:41.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.235][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.237][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:41.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:41.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.242][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:41.243][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:41.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.246][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.247][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:41.248][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:41.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.251][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.252][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:41.253][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:41.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.256][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.257][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:41.258][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:41.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.261][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.262][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:41.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:41.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.267][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:41.268][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:41.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.271][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:41.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:41.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.277][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:41.278][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:41.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.281][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:41.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:41.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.288][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:41.289][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:41.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.291][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.293][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:41.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:41.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.298][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:41.299][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:41.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.301][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:41.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:41.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:41.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:41.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:41.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:41.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:41.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:41.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:41.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:41.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:41.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:41.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:41.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:41.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:41.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:41.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:41.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:41.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:41.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:41.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:41.361][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-07-06 16:02:41.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:41.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:41.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:41.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:41.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:41.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:41.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:41.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:41.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:41.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:41.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:41.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:41.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:41.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:41.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:41.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:41.390][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-07-06 16:02:41.391][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:41.393][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-07-06 16:02:41.394][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:41.396][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:41.397][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:41.398][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:41.399][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:41.401][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:41.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:41.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:41.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:41.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:41.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:41.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:41.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:41.417][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2024-07-06 16:02:41.420][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:41.422][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:41.424][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2024-07-06 16:02:41.798][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2024-07-06 16:02:42.167][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:42.170][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2024-07-06 16:02:42.174][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2024-07-06 16:02:42.177][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2024-07-06 16:02:42.180][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:42.181][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:42.183][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:42.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:42.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:42.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:42.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:42.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:42.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:42.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:42.199][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:42.205][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:42.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.211][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:42.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:42.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.218][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:42.219][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:42.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.221][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.223][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:42.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:42.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.228][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:42.229][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:42.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.232][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:42.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:42.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.238][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:42.240][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:42.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.242][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.244][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:42.245][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:42.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.247][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.249][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:42.250][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:42.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.253][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.254][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:42.255][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:42.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.258][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.259][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:42.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:42.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.264][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:42.266][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:42.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.268][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:42.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:42.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.275][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:42.276][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:42.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.283][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:42.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:42.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.290][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:42.291][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:42.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.294][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.295][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:42.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:42.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.300][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:42.302][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:42.303][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.304][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:42.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:42.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:42.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:42.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:42.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:42.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:42.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:42.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:42.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:42.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:42.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:42.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:42.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:42.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:42.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:42.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:42.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:42.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:42.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:42.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:42.369][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-07-06 16:02:42.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:42.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:42.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:42.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:42.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:42.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:42.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:42.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:42.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:42.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:42.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:42.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:42.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:42.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:42.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:42.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:42.400][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-07-06 16:02:42.401][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:42.403][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-07-06 16:02:42.405][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:42.406][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:42.408][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:42.409][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:42.411][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:42.412][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:42.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:42.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:42.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:42.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:42.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:42.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:42.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:42.431][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2024-07-06 16:02:42.435][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:42.436][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:42.438][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2024-07-06 16:02:42.817][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2024-07-06 16:02:43.199][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:43.202][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2024-07-06 16:02:43.234][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2024-07-06 16:02:43.238][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2024-07-06 16:02:43.266][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:43.268][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:43.270][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:43.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:43.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:43.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:43.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:43.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:43.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:43.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:43.286][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:43.288][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:43.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.290][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:43.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:43.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.297][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:43.298][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:43.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.300][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.302][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:43.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:43.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.307][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:43.308][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:43.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.311][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.312][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:43.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:43.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.317][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:43.323][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:43.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.329][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:43.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:43.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.336][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:43.338][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:43.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.340][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:43.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:43.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.346][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:43.348][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:43.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.350][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.352][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:43.353][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:43.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.355][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.357][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:43.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:43.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.362][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:43.363][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:43.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.366][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:43.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:43.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.373][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:43.374][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:43.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.376][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.378][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:43.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:43.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.383][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:43.384][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:43.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.387][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.388][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:43.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:43.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.393][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:43.395][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:43.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.397][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.399][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:43.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:43.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:43.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:43.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:43.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:43.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:43.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:43.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:43.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:43.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:43.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:43.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:43.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:43.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:43.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:43.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:43.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:43.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:43.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:43.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:43.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:43.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:43.454][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-07-06 16:02:43.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:43.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:43.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.460][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:43.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:43.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:43.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:43.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:43.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:43.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:43.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:43.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:43.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:43.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:43.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:43.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:43.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:43.488][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-07-06 16:02:43.489][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:43.491][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-07-06 16:02:43.493][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:43.494][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:43.496][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:43.497][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:43.498][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:43.499][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:43.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:43.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:43.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:43.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:43.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:43.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:43.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:43.516][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2024-07-06 16:02:43.520][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:43.521][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:43.523][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2024-07-06 16:02:43.896][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2024-07-06 16:02:44.266][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:44.269][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2024-07-06 16:02:44.359][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2024-07-06 16:02:44.362][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2024-07-06 16:02:44.364][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:44.366][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:44.367][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:44.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:44.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:44.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:44.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:44.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:44.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:44.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:44.384][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:44.385][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:44.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.388][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:44.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:44.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.394][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:44.395][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:44.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.398][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.399][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:44.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:44.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.404][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:44.406][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:44.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.408][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.409][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:44.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:44.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.414][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:44.416][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:44.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.418][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.419][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:44.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:44.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.424][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:44.426][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:44.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.428][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:44.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:44.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.442][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:44.443][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:44.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.446][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.447][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:44.448][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:44.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.451][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.452][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:44.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:44.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.457][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:44.458][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:44.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.461][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:44.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:44.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.467][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:44.469][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:44.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.471][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.473][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:44.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:44.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.478][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:44.479][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:44.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.481][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.483][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:44.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:44.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.488][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:44.489][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:44.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.491][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.493][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:44.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:44.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:44.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:44.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:44.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:44.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:44.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:44.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:44.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:44.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:44.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:44.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:44.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:44.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:44.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:44.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:44.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:44.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:44.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:44.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:44.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:44.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:44.551][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-07-06 16:02:44.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:44.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:44.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:44.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:44.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:44.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:44.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:44.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:44.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:44.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:44.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:44.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:44.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:44.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:44.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:44.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:44.586][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-07-06 16:02:44.587][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:44.589][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-07-06 16:02:44.590][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:44.592][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:44.593][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:44.594][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:44.596][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:44.597][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:44.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:44.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:44.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:44.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:44.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:44.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:44.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:44.613][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2024-07-06 16:02:44.617][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:44.618][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:44.620][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2024-07-06 16:02:45.007][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2024-07-06 16:02:45.379][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:45.381][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2024-07-06 16:02:45.386][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2024-07-06 16:02:45.390][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2024-07-06 16:02:45.392][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:45.393][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:45.395][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:45.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:45.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:45.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:45.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:45.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:45.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:45.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:45.411][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:45.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:45.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.415][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:45.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:45.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.422][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:45.423][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:45.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.426][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.427][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:45.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:45.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.432][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:45.433][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:45.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.436][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.437][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:45.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:45.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.443][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:45.444][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:45.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.447][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.448][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:45.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:45.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.454][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:45.455][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:45.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.458][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.459][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:45.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:45.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.465][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:45.466][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:45.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.468][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.470][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:45.471][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:45.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.481][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.483][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:45.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:45.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.489][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:45.491][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:45.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.493][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:45.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:45.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.500][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:45.502][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:45.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.504][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.506][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:45.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:45.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.511][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:45.513][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:45.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.515][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.517][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:45.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:45.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.522][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:45.523][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:45.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.525][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.527][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:45.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:45.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:45.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:45.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:45.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:45.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:45.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:45.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:45.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:45.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:45.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:45.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:45.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:45.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:45.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:45.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:45.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:45.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:45.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:45.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:45.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:45.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:45.582][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-07-06 16:02:45.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:45.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:45.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:45.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:45.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:45.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:45.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:45.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:45.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:45.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:45.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:45.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:45.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:45.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:45.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:45.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:45.612][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-07-06 16:02:45.613][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:45.615][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-07-06 16:02:45.616][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:45.618][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:45.624][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:45.625][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:45.626][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:45.628][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:45.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:45.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:45.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:45.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:45.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:45.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:45.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:45.644][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2024-07-06 16:02:45.647][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:45.648][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:45.650][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2024-07-06 16:02:46.020][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2024-07-06 16:02:46.390][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:46.393][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2024-07-06 16:02:46.714][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2024-07-06 16:02:47.195][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2024-07-06 16:02:47.563][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:47.565][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:47.568][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:47.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:47.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:47.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:47.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:47.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:47.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:47.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:47.605][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:47.607][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:47.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.609][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:47.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:47.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.616][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:47.617][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:47.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.619][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.621][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:47.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:47.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.626][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:47.627][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:47.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.630][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.631][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:47.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:47.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.636][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:47.638][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:47.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.640][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.641][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:47.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:47.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.646][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:47.648][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:47.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.650][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:47.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:47.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.656][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:47.658][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:47.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.660][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.662][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:47.663][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:47.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.665][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.667][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:47.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:47.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.672][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:47.673][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:47.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.675][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:47.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:47.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.691][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:47.693][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:47.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.695][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.697][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:47.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:47.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.702][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:47.703][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:47.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.705][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.707][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:47.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:47.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.712][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:47.713][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:47.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.715][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.717][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:47.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:47.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:47.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:47.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:47.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:47.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:47.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:47.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:47.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:47.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:47.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:47.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:47.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:47.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:47.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:47.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:47.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:47.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:47.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:47.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:47.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:47.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:47.771][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-07-06 16:02:47.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:47.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:47.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:47.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:47.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:47.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:47.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:47.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:47.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:47.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:47.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:47.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:47.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:47.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:47.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:47.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:47.800][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-07-06 16:02:47.802][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:47.804][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-07-06 16:02:47.805][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:47.807][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:47.808][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:47.809][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:47.811][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:47.812][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:47.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:47.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:47.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:47.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:47.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:47.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:47.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:47.835][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2024-07-06 16:02:47.845][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:47.846][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:47.848][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2024-07-06 16:02:48.230][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2024-07-06 16:02:48.612][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:48.614][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2024-07-06 16:02:48.911][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2024-07-06 16:02:48.924][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2024-07-06 16:02:49.235][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:49.239][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:49.241][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:49.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:49.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:49.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:49.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:49.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:49.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:49.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:49.258][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:49.259][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:49.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.261][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:49.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:49.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.268][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:49.270][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:49.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.272][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.274][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:49.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:49.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.279][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:49.280][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:49.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.282][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.286][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:49.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:49.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.291][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:49.292][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:49.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.294][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:49.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:49.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.301][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:49.303][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:49.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.305][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:49.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:49.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.312][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:49.313][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:49.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.316][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.317][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:49.318][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:49.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.321][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.322][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:49.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:49.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.327][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:49.329][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:49.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.332][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:49.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:49.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.338][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:49.342][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:49.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.344][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:49.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:49.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.361][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:49.362][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:49.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.365][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.366][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:49.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:49.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.371][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:49.372][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:49.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.375][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.377][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:49.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:49.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:49.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:49.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:49.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:49.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:49.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:49.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:49.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:49.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:49.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:49.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:49.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:49.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:49.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:49.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:49.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:49.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:49.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:49.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:49.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:49.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:49.437][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-07-06 16:02:49.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:49.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:49.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:49.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:49.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:49.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:49.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:49.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:49.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:49.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:49.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:49.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:49.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:49.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:49.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:49.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:49.467][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-07-06 16:02:49.468][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:49.471][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-07-06 16:02:49.472][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:49.474][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:49.478][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:49.479][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:49.481][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:49.482][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:49.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:49.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:49.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:49.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:49.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:49.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:49.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:49.501][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2024-07-06 16:02:49.509][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:49.510][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:49.512][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2024-07-06 16:02:49.993][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2024-07-06 16:02:50.383][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:50.386][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2024-07-06 16:02:50.719][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2024-07-06 16:02:50.758][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2024-07-06 16:02:50.920][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:50.922][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:50.924][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:50.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:50.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:50.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:50.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:50.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:50.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:50.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:50.941][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:50.943][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:50.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:50.946][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:50.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:50.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:50.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:50.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:50.958][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:50.965][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:50.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:50.967][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:50.969][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:50.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:50.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:50.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:50.979][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:50.981][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:50.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:50.983][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:50.985][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:50.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:50.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:50.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:50.990][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:50.992][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:50.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:50.994][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:50.996][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:50.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:50.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:50.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.001][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:51.002][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:51.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.005][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:51.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:51.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.012][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:51.014][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:51.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.016][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.018][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:51.019][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:51.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.022][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.023][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:51.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:51.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.029][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:51.030][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:51.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.033][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:51.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:51.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.070][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:51.072][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:51.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.080][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.081][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:51.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:51.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.087][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:51.088][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:51.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.096][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.098][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:51.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:51.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.120][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:51.121][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:51.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.124][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.125][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:51.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:51.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:51.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:51.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:51.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:51.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:51.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:51.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:51.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:51.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:51.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:51.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:51.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:51.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:51.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:51.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:51.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:51.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:51.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:51.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:51.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:51.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:51.215][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-07-06 16:02:51.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:51.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:51.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:51.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:51.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:51.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:51.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:51.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:51.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:51.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:51.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:51.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:51.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:51.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:51.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:51.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:51.273][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-07-06 16:02:51.274][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:51.277][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-07-06 16:02:51.278][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:51.280][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:51.281][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:51.282][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:51.284][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:51.285][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:51.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:51.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:51.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:51.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:51.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:51.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:51.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:51.303][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2024-07-06 16:02:51.307][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:51.308][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:51.310][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2024-07-06 16:02:51.681][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2024-07-06 16:02:52.055][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:52.058][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2024-07-06 16:02:52.515][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2024-07-06 16:02:52.554][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2024-07-06 16:02:52.758][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:52.775][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:52.782][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:52.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:52.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:52.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:52.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:52.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:52.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:52.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:52.812][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:52.813][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:52.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.815][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:52.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:52.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.822][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:52.824][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:52.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.826][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.828][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:52.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:52.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.833][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:52.834][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:52.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.836][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.838][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:52.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:52.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.843][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:52.845][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:52.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.847][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:52.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:52.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.882][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:52.884][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:52.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.886][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.887][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:52.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:52.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.902][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:52.903][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:52.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.908][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.909][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:52.911][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:52.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.916][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.917][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:52.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:52.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.925][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:52.926][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:52.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.929][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:52.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:52.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.935][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:52.937][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:52.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.939][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:52.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:52.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.947][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:52.948][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:52.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.951][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.952][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:52.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:52.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.958][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:52.959][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:52.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.961][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.963][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:52.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:52.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:52.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:52.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:52.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:52.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:52.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:52.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:52.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:52.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:52.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:52.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:52.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:52.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:53.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:53.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:53.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:53.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:53.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:53.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:53.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:53.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:53.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:53.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.073][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-07-06 16:02:53.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.157][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:02:53.163][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:02:53.166][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-06 16:02:53.169][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:02:53.177][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-06 16:02:53.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:53.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:53.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:53.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:53.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:53.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:53.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:53.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:53.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:53.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:53.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:53.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:54.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:54.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:54.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:54.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:54.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:54.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:54.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:54.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:54.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:54.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:54.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:54.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:54.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:54.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:54.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:54.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:54.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:54.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:54.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:54.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:54.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:54.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:54.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:54.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:54.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:54.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:54.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:54.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:54.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:54.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:54.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:54.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:54.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:54.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:54.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:54.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:54.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:54.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:54.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:54.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:54.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:54.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:54.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:54.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:54.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:54.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:54.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:54.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:54.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:54.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:54.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:54.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:54.146][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:02:54.150][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:54.152][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:54.154][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:02:54.523][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:02:54.897][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:54.899][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2024-07-06 16:02:55.090][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2024-07-06 16:02:55.333][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:02:55.337][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:55.338][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:55.341][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:02:55.716][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:02:56.093][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:56.095][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2024-07-06 16:02:56.349][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2024-07-06 16:02:56.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:56.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:56.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:56.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:56.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:56.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:56.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:56.624][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-07-06 16:02:56.625][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:56.627][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-07-06 16:02:56.629][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:56.630][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:56.632][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:56.633][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:56.634][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:56.635][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:56.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:56.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:56.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:56.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:56.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:56.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:56.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:56.653][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2024-07-06 16:02:56.657][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:56.658][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:56.660][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2024-07-06 16:02:57.032][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2024-07-06 16:02:57.412][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:57.415][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2024-07-06 16:02:57.565][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2024-07-06 16:02:57.847][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2024-07-06 16:02:58.092][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:02:58.094][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:02:58.095][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:02:58.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:58.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:58.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:58.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:58.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:58.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:58.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:58.121][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:58.122][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:58.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.125][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:58.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:58.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.131][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:58.132][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:58.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.135][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.136][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:02:58.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:02:58.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.141][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:58.142][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:58.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.145][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.147][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:02:58.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:02:58.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.152][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:58.153][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:58.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.156][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:02:58.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:02:58.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.163][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:58.164][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:58.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.167][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.169][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:02:58.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:02:58.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.176][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:58.177][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:58.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.183][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.187][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:58.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:02:58.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.192][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:58.193][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:58.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.196][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.197][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:02:58.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:02:58.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.202][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.208][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.211][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.218][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:58.220][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:58.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.222][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.224][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:02:58.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:02:58.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.230][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:58.232][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:58.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.235][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.237][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:02:58.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:02:58.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.243][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:58.244][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:58.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.246][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.248][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:02:58.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:02:58.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:58.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:58.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:58.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:58.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:58.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:58.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:02:58.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:02:58.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:58.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:58.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:58.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:58.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:58.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:58.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:58.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:58.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:58.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:58.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:02:58.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:02:58.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:58.314][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-07-06 16:02:58.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:58.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:58.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:58.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:58.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:58.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:58.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:58.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:02:58.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:02:58.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:02:58.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:02:58.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:02:58.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:58.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:58.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:58.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:58.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:58.392][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:58.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:58.394][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-07-06 16:02:58.396][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:02:58.398][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-07-06 16:02:58.400][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:02:58.401][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:02:58.402][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:02:58.404][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:02:58.405][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:02:58.406][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:02:58.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:02:58.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:02:58.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:02:58.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:02:58.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:02:58.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:02:58.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:02:58.439][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2024-07-06 16:02:58.442][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:02:58.444][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:02:58.446][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2024-07-06 16:02:58.816][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2024-07-06 16:02:59.198][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:02:59.202][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2024-07-06 16:02:59.806][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2024-07-06 16:03:00.173][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2024-07-06 16:03:00.456][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:00.458][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:00.459][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:00.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:00.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:00.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:00.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:00.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:00.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:00.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:00.476][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:00.477][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:00.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.480][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:00.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:00.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.487][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:00.488][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:00.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.490][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.492][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:00.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:00.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.497][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:00.498][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:00.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.500][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.502][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:00.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:00.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.507][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:00.509][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:00.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.511][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:00.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:00.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.534][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:00.536][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:00.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.538][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:00.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:00.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.545][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:00.546][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:00.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.548][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.550][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:00.551][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:00.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.554][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.555][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:00.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:00.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.560][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.562][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.564][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.571][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:00.572][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:00.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.574][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.576][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:00.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:00.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.581][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:00.582][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:00.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.585][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.587][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:00.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:00.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.609][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:00.610][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:00.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.613][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.614][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:00.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:00.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:00.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:00.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:00.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:00.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:00.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:00.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:00.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:00.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:00.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:00.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:00.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:00.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:00.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:00.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:00.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:00.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:00.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:00.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:00.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:00.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:00.697][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-07-06 16:03:00.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:00.752][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:00.763][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:00.765][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-06 16:03:00.767][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:00.768][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-06 16:03:00.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:00.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:00.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:00.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:00.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:00.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:00.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:00.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:00.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:00.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:00.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:00.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:00.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:00.813][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:00.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:00.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:00.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:00.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:00.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:00.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:00.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:00.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:00.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:00.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:00.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:00.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:00.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:00.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:00.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:00.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:00.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:00.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:00.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:00.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:00.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:00.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:00.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:00.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:00.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:00.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:00.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:00.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:00.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.620][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:01.624][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:01.626][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-06 16:03:01.628][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:01.629][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-06 16:03:01.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:01.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:01.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:01.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:01.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:01.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:01.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:01.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:01.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:01.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:01.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:01.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.065][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.177][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:02.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.518][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:02.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:02.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-06 16:03:02.535][biodb::testThat]
biodb.INFO [2024-07-06 16:03:02.536][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-07-06 16:03:02.537][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:03:02.539][biodb::testThat]
biodb.TRACE[2024-07-06 16:03:02.542][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:03:02.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:03:02.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.547][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:03:02.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:03:02.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.552][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:03:02.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:03:02.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:02.668][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:02.672][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:02.674][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-06 16:03:02.676][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:02.678][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-06 16:03:02.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.716][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:02.720][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:02.722][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-06 16:03:02.724][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:02.725][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-06 16:03:02.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:02.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:02.803][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:02.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.836][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.852][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:02.853][private$selectFields]
biodb.TRACE[2024-07-06 16:03:02.854][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:02.857][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:02.858][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:02.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.861][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.866][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.868][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.869][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.871][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.873][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:02.874][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:02.875][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.876][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.879][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.880][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:02.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.916][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-06 16:03:02.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:02.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:02.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:02.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:02.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:02.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.941][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:02.942][private$selectFields]
biodb.TRACE[2024-07-06 16:03:02.944][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:02.946][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:02.947][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:02.948][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.954][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.955][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.962][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.963][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:02.964][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:02.965][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.967][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.969][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.970][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:02.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:02.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:02.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:02.989][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:03:02.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:02.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:02.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:03.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:03.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:03.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:03.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:03.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:03.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:03.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:03.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:03.020][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:03.021][private$selectFields]
biodb.TRACE[2024-07-06 16:03:03.022][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:03.023][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:03.025][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:03.026][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.027][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:03.030][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:03.031][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.032][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:03.034][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:03.036][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:03.038][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:03.039][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.054][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:03.057][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:03.058][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:03.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:03.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:03.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:03.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:03.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:03.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:03.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:03.079][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-06 16:03:03.081][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:03.082][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:03:03.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:03.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:03.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:03.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:03.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:03.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:03.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:03.101][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:03.105][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:03.107][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:03.109][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:03:03.480][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:03:03.853][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:03.856][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content"
biodb.TRACE[2024-07-06 16:03:04.129][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.request"
biodb.DEBUG[2024-07-06 16:03:04.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:04.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:04.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:04.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:04.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:04.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:04.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:04.523][private$loadEntries] Creating entries from ids [1]: "113227".
biodb.DEBUG[2024-07-06 16:03:04.525][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:04.527][cch$loadFileContent] Trying to load 1 files from cache: [1]: "113227".
biodb.TRACE[2024-07-06 16:03:04.528][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:04.530][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:04.533][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:04.535][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:04.537][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:04.538][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:04.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:04.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:04.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:04.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:04.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:04.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:04.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:04.556][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227".
biodb.DEBUG[2024-07-06 16:03:04.560][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:04.561][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:04.563][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227".
biodb.TRACE[2024-07-06 16:03:04.932][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227).
biodb.DEBUG[2024-07-06 16:03:05.309][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:05.312][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ed496dac459a2ba62e671edbcae22326.content"
biodb.TRACE[2024-07-06 16:03:05.685][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ed496dac459a2ba62e671edbcae22326.request"
biodb.TRACE[2024-07-06 16:03:05.693][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/113227.xml"
biodb.DEBUG[2024-07-06 16:03:05.964][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:05.966][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:05.968][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:05.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:05.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:05.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:05.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:05.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:05.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:05.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:05.986][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:05.987][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:05.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:05.990][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:05.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:05.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:05.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:05.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:05.996][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:05.997][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:05.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.000][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.001][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:06.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:06.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.006][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:06.009][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:06.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.011][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.013][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:06.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:06.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.020][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:06.022][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:06.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.027][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:06.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:06.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.033][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:06.037][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:06.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.040][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:06.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:06.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.046][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:06.048][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:06.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.050][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.051][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:06.053][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:06.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.056][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.058][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:06.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:06.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.063][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:06.065][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:06.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.067][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:06.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:06.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.074][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:06.075][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:06.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.078][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.080][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:06.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:06.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.085][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:06.086][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:06.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.088][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.090][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:06.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:06.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.095][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:06.097][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:06.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.101][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.102][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:06.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:06.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:06.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:06.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:06.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:06.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:06.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:06.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:06.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:06.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:06.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:06.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:06.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:06.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:06.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:06.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:06.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:06.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:06.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:06.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:06.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:06.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:06.196][self$createEntryFromContent] Accession numbers: 113227.
biodb.TRACE[2024-07-06 16:03:06.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:06.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:06.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:06.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:06.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:06.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:06.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:06.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:06.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:06.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:06.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:06.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:06.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:06.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:06.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:06.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:06.229][private$loadEntries] Creating entries from ids [1]: "169712".
biodb.DEBUG[2024-07-06 16:03:06.231][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:06.233][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169712".
biodb.TRACE[2024-07-06 16:03:06.235][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:06.236][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:06.238][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:06.239][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:06.240][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:06.241][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:06.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:06.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:06.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:06.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:06.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:06.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:06.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:06.277][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712".
biodb.DEBUG[2024-07-06 16:03:06.281][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:06.282][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:06.284][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712".
biodb.TRACE[2024-07-06 16:03:06.659][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712).
biodb.DEBUG[2024-07-06 16:03:07.036][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:07.039][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6e52d7b9d801aec68d97cc03bd4acc90.content"
biodb.TRACE[2024-07-06 16:03:07.047][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6e52d7b9d801aec68d97cc03bd4acc90.request"
biodb.TRACE[2024-07-06 16:03:07.317][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169712.xml"
biodb.DEBUG[2024-07-06 16:03:07.723][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:07.735][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:07.737][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:07.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:07.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:07.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:07.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:07.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:07.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:07.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:07.757][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:07.759][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:07.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.762][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:07.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:07.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.769][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:07.770][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:07.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.772][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.774][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:07.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:07.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.779][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:07.780][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:07.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.782][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.784][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:07.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:07.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.789][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:07.790][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:07.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.792][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.794][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:07.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:07.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.815][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:07.816][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:07.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.819][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.820][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:07.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:07.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.825][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:07.827][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:07.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.829][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.831][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:07.832][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:07.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.834][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.836][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:07.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:07.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.841][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:07.843][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:07.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.845][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:07.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:07.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.852][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:07.853][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:07.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.855][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.857][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:07.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:07.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.862][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:07.863][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:07.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.866][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.868][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:07.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:07.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.873][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:07.875][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:07.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.878][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.891][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:07.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:07.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:07.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:07.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:07.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:07.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:07.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:07.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:07.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:07.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:07.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:07.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:07.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:07.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:07.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:07.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:07.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:07.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:07.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:07.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:07.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:07.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:07.946][self$createEntryFromContent] Accession numbers: 169712.
biodb.TRACE[2024-07-06 16:03:07.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:07.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:07.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:07.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:07.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:07.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:07.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:07.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:07.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:07.970][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:07.990][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:07.992][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:07.994][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:03:08.365][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:03:08.750][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:08.755][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content"
biodb.TRACE[2024-07-06 16:03:09.202][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.request"
biodb.DEBUG[2024-07-06 16:03:09.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:09.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:09.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:09.677][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:09.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:09.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:09.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:09.682][private$loadEntries] Creating entries from ids [1]: "4781".
biodb.DEBUG[2024-07-06 16:03:09.683][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:09.685][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4781".
biodb.TRACE[2024-07-06 16:03:09.686][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:09.688][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:09.689][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:09.695][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:09.696][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:09.697][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:09.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:09.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:09.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:09.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:09.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:09.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:09.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:09.723][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781".
biodb.DEBUG[2024-07-06 16:03:09.727][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:09.728][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:09.730][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781".
biodb.TRACE[2024-07-06 16:03:10.101][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781).
biodb.DEBUG[2024-07-06 16:03:10.569][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:10.571][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e4869054c906476bc1e4ece10c7e53cc.content"
biodb.TRACE[2024-07-06 16:03:10.960][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e4869054c906476bc1e4ece10c7e53cc.request"
biodb.TRACE[2024-07-06 16:03:11.200][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4781.xml"
biodb.DEBUG[2024-07-06 16:03:11.687][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:11.688][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:11.690][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:11.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:11.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:11.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:11.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:11.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:11.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:11.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:11.712][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:11.713][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:11.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.716][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:11.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:11.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.723][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:11.724][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:11.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.727][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.729][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:11.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:11.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.734][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:11.736][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:11.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.738][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.740][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:11.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:11.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.745][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:11.746][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:11.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.749][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.750][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:11.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:11.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.755][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:11.757][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:11.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.759][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:11.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:11.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.780][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:11.781][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:11.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.787][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.788][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:11.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:11.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.793][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:11.795][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:11.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.797][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.798][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:11.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:11.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.803][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:11.805][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:11.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.807][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:11.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:11.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.813][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:11.815][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:11.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.817][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.819][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:11.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:11.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.824][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:11.825][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:11.827][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.828][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.829][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:11.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:11.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.834][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:11.835][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:11.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.838][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.840][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:11.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:11.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:11.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:11.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:11.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:11.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:11.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:11.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:11.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:11.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:11.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:11.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:11.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:11.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:11.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:11.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:11.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:11.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:11.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:11.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:11.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:11.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:11.902][self$createEntryFromContent] Accession numbers: 4781.
biodb.TRACE[2024-07-06 16:03:11.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:11.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:11.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:11.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:11.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:11.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:11.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:11.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:11.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:11.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:11.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:11.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:11.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:11.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:11.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:11.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:11.932][private$loadEntries] Creating entries from ids [1]: "16587".
biodb.DEBUG[2024-07-06 16:03:11.934][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:11.936][cch$loadFileContent] Trying to load 1 files from cache: [1]: "16587".
biodb.TRACE[2024-07-06 16:03:11.937][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:11.940][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:11.942][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:11.943][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:11.944][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:11.945][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:11.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:11.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:11.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:11.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:11.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:11.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:11.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:11.966][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587".
biodb.DEBUG[2024-07-06 16:03:11.969][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:11.971][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:11.972][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587".
biodb.TRACE[2024-07-06 16:03:12.363][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587).
biodb.DEBUG[2024-07-06 16:03:12.734][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:12.737][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6012905c0932919c069ecb5afc0b487b.content"
biodb.TRACE[2024-07-06 16:03:13.104][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6012905c0932919c069ecb5afc0b487b.request"
biodb.TRACE[2024-07-06 16:03:13.589][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/16587.xml"
biodb.DEBUG[2024-07-06 16:03:14.072][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:14.073][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:14.075][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:14.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:14.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:14.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:14.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:14.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:14.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:14.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:14.103][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:14.105][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:14.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.107][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:14.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:14.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.114][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:14.115][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:14.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.118][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.120][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:14.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:14.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.126][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:14.127][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:14.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.129][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.133][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:14.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:14.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.140][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:14.142][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:14.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.144][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:14.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:14.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.151][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:14.152][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:14.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.155][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:14.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:14.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.161][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:14.162][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:14.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.165][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.166][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:14.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:14.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.171][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:14.176][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:14.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.179][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.180][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:14.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:14.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.185][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:14.187][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:14.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.189][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:14.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:14.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.196][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:14.197][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:14.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.199][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:14.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:14.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.206][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:14.208][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:14.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.210][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.212][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:14.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:14.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.216][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:14.218][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:14.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.220][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.222][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:14.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:14.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:14.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:14.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:14.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:14.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:14.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:14.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:14.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:14.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:14.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:14.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:14.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:14.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:14.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:14.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:14.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:14.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:14.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:14.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:14.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:14.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:14.286][self$createEntryFromContent] Accession numbers: 16587.
biodb.TRACE[2024-07-06 16:03:14.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:14.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:14.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:14.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:14.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:14.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:14.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:14.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:14.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:14.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:14.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:14.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:14.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:14.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:14.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:14.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:14.315][private$loadEntries] Creating entries from ids [1]: "19804".
biodb.DEBUG[2024-07-06 16:03:14.317][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:14.319][cch$loadFileContent] Trying to load 1 files from cache: [1]: "19804".
biodb.TRACE[2024-07-06 16:03:14.320][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:14.322][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:14.323][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:14.324][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:14.325][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:14.327][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:14.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:14.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:14.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:14.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:14.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:14.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:14.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:14.349][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804".
biodb.DEBUG[2024-07-06 16:03:14.355][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:14.356][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:14.358][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804".
biodb.TRACE[2024-07-06 16:03:14.727][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804).
biodb.DEBUG[2024-07-06 16:03:15.120][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:15.123][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef7e014212775cbaa9299e60f32b2bcd.content"
biodb.TRACE[2024-07-06 16:03:15.249][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef7e014212775cbaa9299e60f32b2bcd.request"
biodb.TRACE[2024-07-06 16:03:15.253][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19804.xml"
biodb.DEBUG[2024-07-06 16:03:15.255][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:15.257][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:15.258][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:15.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:15.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:15.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:15.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:15.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:15.270][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:15.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:15.275][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:15.276][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:15.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.279][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:15.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:15.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.287][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:15.289][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:15.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.291][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.295][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:15.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:15.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.302][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:15.303][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:15.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.305][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.307][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:15.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:15.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.312][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:15.313][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:15.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:15.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:15.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.322][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:15.323][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:15.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.326][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:15.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:15.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.332][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:15.333][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:15.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.336][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.337][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:15.338][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:15.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.345][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.347][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:15.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:15.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.352][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:15.353][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:15.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.356][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:15.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:15.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.362][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:15.363][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:15.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.366][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:15.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:15.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.373][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:15.374][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:15.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.376][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.378][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:15.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:15.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.383][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:15.384][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:15.385][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.387][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:15.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:15.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:15.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:15.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:15.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:15.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:15.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:15.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:15.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:15.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:15.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:15.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:15.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:15.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:15.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:15.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:15.449][self$createEntryFromContent] Accession numbers: 19804.
biodb.TRACE[2024-07-06 16:03:15.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:15.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:15.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:15.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:15.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:15.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:15.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:15.502][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:15.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:15.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:15.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:15.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:15.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:15.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:15.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:15.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.560][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:15.562][private$selectFields]
biodb.TRACE[2024-07-06 16:03:15.563][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:15.564][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:15.565][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:15.566][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.567][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.570][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.571][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.572][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.579][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.580][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:15.582][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:15.583][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.584][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.587][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.588][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:15.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.605][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:03:15.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:15.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:15.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:15.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:15.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:15.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:15.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:15.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.631][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:15.632][private$selectFields]
biodb.TRACE[2024-07-06 16:03:15.634][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:15.636][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:15.638][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:15.639][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.640][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.642][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.644][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.647][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.649][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.651][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:15.652][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:15.654][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.655][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.658][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.659][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:15.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.684][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-07-06 16:03:15.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:15.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:15.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:15.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:15.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:15.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:15.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:15.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.737][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:15.738][private$selectFields]
biodb.TRACE[2024-07-06 16:03:15.739][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:15.740][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:15.741][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:15.743][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.744][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.746][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.748][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.749][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.752][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.754][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:15.756][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:15.757][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.758][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.763][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.765][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:15.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:15.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:15.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:15.782][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-07-06 16:03:15.783][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:15.784][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:03:15.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:15.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:15.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:15.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:15.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:15.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:15.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:15.802][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:15.809][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:15.810][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:15.813][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:03:16.239][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:03:16.608][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:16.610][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content"
biodb.TRACE[2024-07-06 16:03:16.642][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.request"
biodb.DEBUG[2024-07-06 16:03:16.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:16.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:16.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:16.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:16.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:16.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:16.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:16.669][private$loadEntries] Creating entries from ids [1]: "159630".
biodb.DEBUG[2024-07-06 16:03:16.670][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:16.672][cch$loadFileContent] Trying to load 1 files from cache: [1]: "159630".
biodb.TRACE[2024-07-06 16:03:16.674][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:16.675][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:16.676][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:16.677][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:16.679][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:16.680][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:16.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:16.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:16.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:16.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:16.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:16.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:16.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:16.702][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630".
biodb.DEBUG[2024-07-06 16:03:16.705][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:16.707][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:16.708][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630".
biodb.TRACE[2024-07-06 16:03:17.079][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630).
biodb.DEBUG[2024-07-06 16:03:17.456][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:17.458][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f9497c6792bdb2528746e6a81b02589e.content"
biodb.TRACE[2024-07-06 16:03:17.463][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f9497c6792bdb2528746e6a81b02589e.request"
biodb.TRACE[2024-07-06 16:03:17.466][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/159630.xml"
biodb.DEBUG[2024-07-06 16:03:17.468][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:17.470][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:17.472][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:17.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:17.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:17.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:17.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:17.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:17.484][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:17.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:17.488][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:17.490][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:17.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.492][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:17.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:17.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.502][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:17.503][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:17.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.505][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.507][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:17.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:17.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.512][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:17.513][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:17.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.515][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.517][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:17.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:17.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.522][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:17.524][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:17.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.526][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.527][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:17.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:17.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.532][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:17.534][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:17.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.536][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:17.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:17.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.543][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:17.544][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:17.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.546][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.548][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:17.549][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:17.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.551][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.553][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:17.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:17.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.558][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:17.560][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:17.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.562][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:17.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:17.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.570][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:17.572][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:17.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.574][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.576][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:17.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:17.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.583][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:17.585][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:17.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.587][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.589][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:17.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:17.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.594][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:17.595][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:17.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.597][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.599][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:17.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:17.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:17.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:17.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:17.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:17.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:17.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:17.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:17.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:17.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:17.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:17.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:17.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:17.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:17.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:17.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:17.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:17.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:17.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:17.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:17.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:17.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:17.659][self$createEntryFromContent] Accession numbers: 159630.
biodb.TRACE[2024-07-06 16:03:17.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:17.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:17.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:17.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:17.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:17.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:17.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:17.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:17.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:17.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:17.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:17.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:17.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:17.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:17.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:17.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:17.691][private$loadEntries] Creating entries from ids [1]: "160202".
biodb.DEBUG[2024-07-06 16:03:17.693][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:17.695][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160202".
biodb.TRACE[2024-07-06 16:03:17.696][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:17.698][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:17.701][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:17.703][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:17.704][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:17.705][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:17.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:17.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:17.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:17.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:17.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:17.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:17.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:17.723][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202".
biodb.DEBUG[2024-07-06 16:03:17.727][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:17.729][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:17.730][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202".
biodb.TRACE[2024-07-06 16:03:18.102][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202).
biodb.DEBUG[2024-07-06 16:03:18.485][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:18.488][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1de9586ccaafdf8e637928dc3e313d63.content"
biodb.TRACE[2024-07-06 16:03:18.493][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1de9586ccaafdf8e637928dc3e313d63.request"
biodb.TRACE[2024-07-06 16:03:18.508][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160202.xml"
biodb.DEBUG[2024-07-06 16:03:18.511][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:18.513][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:18.514][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:18.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:18.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:18.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:18.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:18.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:18.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:18.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:18.531][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:18.535][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:18.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.538][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:18.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:18.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.546][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:18.548][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:18.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.551][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.552][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:18.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:18.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.558][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:18.560][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:18.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.563][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.565][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:18.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:18.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.571][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:18.572][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:18.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.575][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:18.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:18.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.581][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:18.582][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:18.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.585][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.586][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:18.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:18.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.591][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:18.592][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:18.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.596][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.598][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:18.599][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:18.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.603][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.604][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:18.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:18.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.609][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:18.611][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:18.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.613][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:18.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:18.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.620][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:18.621][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:18.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.623][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.625][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:18.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:18.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.630][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:18.631][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:18.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.633][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.635][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:18.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:18.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.640][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:18.642][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:18.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.644][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.646][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:18.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:18.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:18.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:18.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:18.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:18.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:18.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:18.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:18.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:18.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:18.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:18.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:18.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:18.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:18.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:18.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:18.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:18.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:18.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:18.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:18.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:18.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:18.709][self$createEntryFromContent] Accession numbers: 160202.
biodb.TRACE[2024-07-06 16:03:18.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:18.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:18.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:18.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:18.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:18.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:18.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:18.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:18.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:18.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:18.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:18.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:18.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:18.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:18.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:18.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:18.743][private$loadEntries] Creating entries from ids [1]: "160393".
biodb.DEBUG[2024-07-06 16:03:18.744][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:18.746][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160393".
biodb.TRACE[2024-07-06 16:03:18.747][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:18.751][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:18.752][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:18.754][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:18.755][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:18.757][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:18.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:18.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:18.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:18.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:18.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:18.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:18.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:18.774][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393".
biodb.DEBUG[2024-07-06 16:03:18.777][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:18.778][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:18.780][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393".
biodb.TRACE[2024-07-06 16:03:19.156][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393).
biodb.DEBUG[2024-07-06 16:03:19.530][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:19.532][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e0266c32050b31cda3d5e01c2d907fcd.content"
biodb.TRACE[2024-07-06 16:03:19.557][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e0266c32050b31cda3d5e01c2d907fcd.request"
biodb.TRACE[2024-07-06 16:03:19.564][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160393.xml"
biodb.DEBUG[2024-07-06 16:03:19.567][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:19.569][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:19.570][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:19.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:19.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:19.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:19.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:19.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:19.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:19.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:19.588][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:19.589][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:19.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.592][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:19.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:19.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.599][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:19.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:19.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.603][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.605][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:19.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:19.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.612][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:19.613][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:19.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.616][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.618][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:19.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:19.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.623][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:19.624][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:19.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.627][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:19.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:19.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.634][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:19.635][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:19.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.637][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.639][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:19.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:19.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.648][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:19.649][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:19.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.652][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.653][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:19.655][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:19.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.657][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.659][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:19.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:19.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.664][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:19.665][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:19.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.668][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:19.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:19.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.676][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:19.677][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:19.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.680][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:19.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:19.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.687][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:19.688][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:19.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.691][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.692][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:19.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:19.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.697][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:19.699][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:19.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.701][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.703][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:19.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:19.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:19.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:19.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:19.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:19.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:19.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:19.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:19.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:19.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:19.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:19.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:19.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:19.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:19.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:19.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:19.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:19.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:19.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:19.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:19.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:19.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:19.774][self$createEntryFromContent] Accession numbers: 160393.
biodb.TRACE[2024-07-06 16:03:19.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:19.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:19.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:19.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:19.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:19.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:19.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:19.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:19.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:19.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:19.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:19.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:19.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:19.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:19.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:19.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:19.810][private$loadEntries] Creating entries from ids [1]: "160991".
biodb.DEBUG[2024-07-06 16:03:19.811][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:19.813][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160991".
biodb.TRACE[2024-07-06 16:03:19.815][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:19.816][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:19.818][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:19.820][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:19.821][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:19.822][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:19.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:19.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:19.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:19.836][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:19.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:19.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:19.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:19.843][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991".
biodb.DEBUG[2024-07-06 16:03:19.847][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:19.848][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:19.850][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991".
biodb.TRACE[2024-07-06 16:03:20.223][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991).
biodb.DEBUG[2024-07-06 16:03:20.594][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:20.602][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6bad8d3e957240d90a71edc1329f8f37.content"
biodb.TRACE[2024-07-06 16:03:20.639][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6bad8d3e957240d90a71edc1329f8f37.request"
biodb.TRACE[2024-07-06 16:03:20.642][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160991.xml"
biodb.DEBUG[2024-07-06 16:03:20.685][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:20.686][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:20.688][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:20.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:20.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:20.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:20.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:20.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:20.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:20.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:20.712][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:20.714][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:20.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.716][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:20.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:20.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.723][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:20.724][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:20.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.727][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.729][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:20.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:20.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.735][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:20.737][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:20.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.741][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.743][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:20.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:20.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.749][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:20.751][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:20.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.753][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:20.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:20.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.760][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:20.761][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:20.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.764][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.765][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:20.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:20.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.771][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:20.772][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:20.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.775][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.801][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:20.803][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:20.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.806][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.808][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:20.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:20.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.814][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:20.815][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:20.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.818][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:20.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:20.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.874][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:20.876][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:20.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.880][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.882][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:20.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:20.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.887][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:20.931][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:20.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.934][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.935][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:20.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:20.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.941][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:20.942][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:20.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.945][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.946][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:20.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:20.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:20.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:20.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:20.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:20.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:21.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:21.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:21.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:21.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:21.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:21.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:21.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:21.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:21.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:21.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:21.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:21.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:21.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:21.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:21.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:21.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:21.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:21.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:21.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:21.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:21.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:21.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:21.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:21.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:21.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:21.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:21.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:21.083][self$createEntryFromContent] Accession numbers: 160991.
biodb.TRACE[2024-07-06 16:03:21.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:21.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:21.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:21.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:21.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:21.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:21.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:21.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:21.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:21.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:21.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:21.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:21.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:21.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:21.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:21.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:21.122][private$loadEntries] Creating entries from ids [1]: "164975".
biodb.DEBUG[2024-07-06 16:03:21.124][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:21.126][cch$loadFileContent] Trying to load 1 files from cache: [1]: "164975".
biodb.TRACE[2024-07-06 16:03:21.163][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:21.165][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:21.166][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:21.167][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:21.169][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:21.170][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:21.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:21.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:21.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:21.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:21.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:21.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:21.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:21.189][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975".
biodb.DEBUG[2024-07-06 16:03:21.193][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:21.195][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:21.197][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975".
biodb.TRACE[2024-07-06 16:03:21.577][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975).
biodb.DEBUG[2024-07-06 16:03:21.963][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:21.966][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b1cbfaf7aef2d62dc8db3306c1521943.content"
biodb.TRACE[2024-07-06 16:03:21.970][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b1cbfaf7aef2d62dc8db3306c1521943.request"
biodb.TRACE[2024-07-06 16:03:21.974][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/164975.xml"
biodb.DEBUG[2024-07-06 16:03:21.976][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:21.977][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:21.979][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:21.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:21.982][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:21.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:21.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:21.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:21.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:21.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:21.995][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:21.997][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:21.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:21.999][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:22.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:22.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.006][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:22.007][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:22.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.009][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.011][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:22.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:22.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.016][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:22.017][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:22.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.020][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.022][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:22.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:22.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.027][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:22.028][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:22.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.031][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:22.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:22.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.037][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:22.039][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:22.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.041][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.043][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:22.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:22.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.048][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:22.049][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:22.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.051][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.053][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:22.054][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:22.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.057][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.069][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:22.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:22.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.074][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:22.076][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:22.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.078][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:22.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:22.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.085][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:22.086][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:22.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.088][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:22.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:22.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.095][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:22.097][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:22.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.099][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.101][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:22.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:22.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.106][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:22.107][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:22.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.109][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.111][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:22.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:22.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:22.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:22.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:22.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:22.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:22.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:22.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:22.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:22.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:22.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:22.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:22.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:22.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:22.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:22.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:22.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:22.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:22.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:22.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:22.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:22.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:22.167][self$createEntryFromContent] Accession numbers: 164975.
biodb.TRACE[2024-07-06 16:03:22.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:22.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:22.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:22.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:22.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:22.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:22.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:22.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:22.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:22.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:22.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:22.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:22.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:22.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:22.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:22.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:22.197][private$loadEntries] Creating entries from ids [1]: "164994".
biodb.DEBUG[2024-07-06 16:03:22.198][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:22.201][cch$loadFileContent] Trying to load 1 files from cache: [1]: "164994".
biodb.TRACE[2024-07-06 16:03:22.202][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:22.203][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:22.205][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:22.206][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:22.207][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:22.209][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:22.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:22.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:22.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:22.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:22.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:22.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:22.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:22.225][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994".
biodb.DEBUG[2024-07-06 16:03:22.229][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:22.230][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:22.232][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994".
biodb.TRACE[2024-07-06 16:03:22.609][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994).
biodb.DEBUG[2024-07-06 16:03:22.983][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:22.986][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c2789f33696a1a62a1d6cd81e3041cd1.content"
biodb.TRACE[2024-07-06 16:03:22.994][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c2789f33696a1a62a1d6cd81e3041cd1.request"
biodb.TRACE[2024-07-06 16:03:22.998][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/164994.xml"
biodb.DEBUG[2024-07-06 16:03:23.000][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:23.001][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:23.003][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:23.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:23.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:23.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:23.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:23.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:23.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:23.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:23.019][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:23.021][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:23.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.023][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:23.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:23.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.030][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:23.031][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:23.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.033][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.035][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:23.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:23.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.040][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:23.041][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:23.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.043][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.045][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:23.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:23.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.050][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:23.052][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:23.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.054][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:23.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:23.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.061][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:23.062][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:23.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.064][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:23.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:23.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.071][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:23.072][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:23.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.075][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.076][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:23.077][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:23.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.080][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.081][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:23.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:23.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.087][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:23.089][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:23.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.091][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:23.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:23.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.102][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:23.104][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:23.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.107][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:23.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:23.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.114][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:23.115][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:23.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.118][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.119][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:23.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:23.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.124][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:23.126][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:23.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.128][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.130][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:23.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:23.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:23.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:23.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:23.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:23.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:23.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:23.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:23.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:23.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:23.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:23.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:23.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:23.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:23.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:23.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:23.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:23.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:23.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:23.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:23.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:23.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:23.186][self$createEntryFromContent] Accession numbers: 164994.
biodb.TRACE[2024-07-06 16:03:23.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:23.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:23.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:23.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:23.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:23.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:23.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:23.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:23.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:23.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:23.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:23.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:23.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:23.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:23.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:23.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:23.216][private$loadEntries] Creating entries from ids [1]: "169251".
biodb.DEBUG[2024-07-06 16:03:23.217][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:23.219][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169251".
biodb.TRACE[2024-07-06 16:03:23.221][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:23.222][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:23.223][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:23.224][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:23.226][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:23.227][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:23.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:23.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:23.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:23.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:23.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:23.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:23.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:23.243][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251".
biodb.DEBUG[2024-07-06 16:03:23.247][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:23.248][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:23.250][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251".
biodb.TRACE[2024-07-06 16:03:23.620][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251).
biodb.DEBUG[2024-07-06 16:03:23.989][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:23.992][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/06c85ce8d5c9a410c27ad425a575abe7.content"
biodb.TRACE[2024-07-06 16:03:24.007][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/06c85ce8d5c9a410c27ad425a575abe7.request"
biodb.TRACE[2024-07-06 16:03:24.010][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169251.xml"
biodb.DEBUG[2024-07-06 16:03:24.012][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:24.014][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:24.016][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:24.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:24.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:24.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:24.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:24.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:24.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:24.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:24.032][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:24.034][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:24.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.036][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:24.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:24.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.043][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:24.044][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:24.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.046][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.048][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:24.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:24.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.053][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:24.054][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:24.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.057][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.058][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:24.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:24.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.063][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:24.065][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:24.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.067][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:24.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:24.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.074][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:24.075][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:24.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.077][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:24.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:24.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.084][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:24.085][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:24.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.087][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.089][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:24.090][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:24.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.093][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.094][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:24.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:24.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.099][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:24.101][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:24.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.103][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:24.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:24.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.109][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:24.111][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:24.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.113][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:24.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:24.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.120][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:24.121][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:24.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.124][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.125][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:24.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:24.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.130][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:24.132][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:24.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.134][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.135][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:24.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:24.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:24.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:24.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:24.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:24.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:24.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:24.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:24.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:24.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:24.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:24.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:24.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:24.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:24.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:24.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:24.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:24.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:24.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:24.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:24.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:24.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:24.203][self$createEntryFromContent] Accession numbers: 169251.
biodb.TRACE[2024-07-06 16:03:24.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:24.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:24.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:24.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:24.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:24.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:24.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:24.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:24.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:24.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:24.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:24.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:24.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:24.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:24.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:24.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:24.232][private$loadEntries] Creating entries from ids [1]: "224261".
biodb.DEBUG[2024-07-06 16:03:24.234][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:24.236][cch$loadFileContent] Trying to load 1 files from cache: [1]: "224261".
biodb.TRACE[2024-07-06 16:03:24.237][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:24.239][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:24.240][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:24.241][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:24.243][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:24.244][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:24.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:24.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:24.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:24.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:24.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:24.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:24.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:24.261][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261".
biodb.DEBUG[2024-07-06 16:03:24.264][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:24.265][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:24.267][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261".
biodb.TRACE[2024-07-06 16:03:24.639][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261).
biodb.DEBUG[2024-07-06 16:03:25.008][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:25.011][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7ba99c29fa5d3888a543698650c3997e.content"
biodb.TRACE[2024-07-06 16:03:25.021][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7ba99c29fa5d3888a543698650c3997e.request"
biodb.TRACE[2024-07-06 16:03:25.025][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/224261.xml"
biodb.DEBUG[2024-07-06 16:03:25.027][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:25.028][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:25.030][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:25.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:25.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:25.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:25.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:25.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:25.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:25.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:25.047][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:25.048][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:25.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.051][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:25.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:25.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.057][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:25.059][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:25.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.061][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.063][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:25.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:25.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.068][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:25.069][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:25.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.072][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.073][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:25.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:25.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.079][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:25.080][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:25.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.082][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:25.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:25.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.089][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:25.090][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:25.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.093][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:25.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:25.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.099][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:25.101][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:25.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.103][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.104][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:25.106][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:25.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.108][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.110][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:25.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:25.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.115][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:25.116][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:25.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.118][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:25.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:25.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.125][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:25.126][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:25.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.129][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.131][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:25.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:25.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.136][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:25.137][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:25.138][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.139][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.141][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:25.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:25.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.146][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:25.147][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:25.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.150][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.151][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:25.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:25.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:25.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:25.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:25.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:25.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:25.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:25.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:25.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:25.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:25.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:25.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:25.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:25.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:25.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:25.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:25.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:25.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:25.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:25.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:25.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:25.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:25.214][self$createEntryFromContent] Accession numbers: 224261.
biodb.TRACE[2024-07-06 16:03:25.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:25.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:25.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:25.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:25.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:25.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:25.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:25.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:25.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:25.231][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:25.235][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:25.236][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:25.239][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:03:25.613][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:03:25.984][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:25.987][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content"
biodb.TRACE[2024-07-06 16:03:25.992][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.request"
biodb.DEBUG[2024-07-06 16:03:25.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:25.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:25.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:26.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:26.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:26.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:26.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:26.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:26.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:26.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:26.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:26.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:26.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:26.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:26.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:26.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:26.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:26.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:26.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:26.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:26.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:26.037][private$loadEntries] Creating entries from ids [1]: "71954".
biodb.DEBUG[2024-07-06 16:03:26.038][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:26.040][cch$loadFileContent] Trying to load 1 files from cache: [1]: "71954".
biodb.TRACE[2024-07-06 16:03:26.042][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:26.043][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:26.045][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:26.047][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:26.048][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:26.050][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:26.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:26.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:26.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:26.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:26.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:26.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:26.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:26.069][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954".
biodb.DEBUG[2024-07-06 16:03:26.073][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:26.075][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:26.077][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954".
biodb.TRACE[2024-07-06 16:03:26.453][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954).
biodb.DEBUG[2024-07-06 16:03:26.841][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:26.844][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58f24f0de3d9b6c69a2b349522c5c9b3.content"
biodb.TRACE[2024-07-06 16:03:26.848][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58f24f0de3d9b6c69a2b349522c5c9b3.request"
biodb.TRACE[2024-07-06 16:03:26.892][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/71954.xml"
biodb.DEBUG[2024-07-06 16:03:26.894][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:26.896][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:26.897][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:26.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:26.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:26.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:26.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:26.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:26.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:26.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:26.914][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:26.916][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:26.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.918][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:26.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:26.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.924][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:26.926][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:26.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.928][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.929][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:26.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:26.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.935][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:26.937][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:26.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.939][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.941][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:26.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:26.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.946][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:26.947][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:26.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.950][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.951][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:26.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:26.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.956][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:26.957][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:26.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.960][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:26.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:26.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.966][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:26.968][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:26.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.970][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.971][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:26.973][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:26.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.975][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.977][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:26.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:26.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.982][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:26.983][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:26.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.985][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:26.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:26.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.992][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:26.993][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:26.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:26.996][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:26.998][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:26.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:27.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.003][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:27.004][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:27.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.006][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.008][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:27.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:27.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.013][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:27.014][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:27.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.017][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.018][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:27.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:27.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:27.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:27.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:27.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:27.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:27.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:27.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:27.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:27.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:27.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:27.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:27.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:27.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:27.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:27.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:27.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:27.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:27.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:27.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:27.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:27.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:27.074][self$createEntryFromContent] Accession numbers: 71954.
biodb.TRACE[2024-07-06 16:03:27.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:27.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:27.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:27.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:27.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:27.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:27.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:27.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:27.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:27.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:27.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:27.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:27.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:27.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:27.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:27.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:27.104][private$loadEntries] Creating entries from ids [1]: "197612".
biodb.DEBUG[2024-07-06 16:03:27.106][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:27.109][cch$loadFileContent] Trying to load 1 files from cache: [1]: "197612".
biodb.TRACE[2024-07-06 16:03:27.112][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:27.113][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:27.115][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:27.117][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:27.119][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:27.120][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:27.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:27.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:27.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:27.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:27.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:27.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:27.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:27.137][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612".
biodb.DEBUG[2024-07-06 16:03:27.141][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:27.142][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:27.144][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612".
biodb.TRACE[2024-07-06 16:03:27.568][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612).
biodb.DEBUG[2024-07-06 16:03:27.948][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:27.952][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d602b140c80212c04a1a2ba98ef7dc4f.content"
biodb.TRACE[2024-07-06 16:03:27.959][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d602b140c80212c04a1a2ba98ef7dc4f.request"
biodb.TRACE[2024-07-06 16:03:27.964][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/197612.xml"
biodb.DEBUG[2024-07-06 16:03:27.968][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:27.970][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:27.972][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:27.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:27.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:27.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:27.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:27.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:27.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:27.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:27.993][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:27.995][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:27.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.002][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:28.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:28.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.016][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:28.018][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:28.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.020][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.022][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:28.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:28.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.027][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:28.028][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:28.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.030][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.032][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:28.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:28.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.037][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:28.038][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:28.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.041][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:28.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:28.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.047][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:28.048][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:28.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.051][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.052][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:28.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:28.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.057][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:28.059][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:28.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.061][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.062][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:28.064][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:28.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.066][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.068][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:28.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:28.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.073][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.074][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.076][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.083][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:28.084][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:28.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.086][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.088][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:28.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:28.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.093][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:28.094][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:28.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.097][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.098][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:28.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:28.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.103][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:28.105][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:28.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.107][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.108][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:28.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:28.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:28.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:28.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:28.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:28.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:28.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:28.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:28.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:28.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:28.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:28.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:28.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:28.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:28.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:28.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:28.164][self$createEntryFromContent] Accession numbers: 197612.
biodb.TRACE[2024-07-06 16:03:28.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:28.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:28.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:28.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:28.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:28.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:28.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:28.181][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:28.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:28.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:28.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:28.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:28.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:28.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:28.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:28.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:28.207][private$selectFields]
biodb.TRACE[2024-07-06 16:03:28.208][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:28.210][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:28.211][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:28.212][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.213][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.216][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.217][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.218][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.221][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.222][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:28.223][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:28.225][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.226][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.228][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.230][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:28.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.247][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-07-06 16:03:28.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:28.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:28.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:28.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:28.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:28.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:28.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:28.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.276][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:28.277][private$selectFields]
biodb.TRACE[2024-07-06 16:03:28.278][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:28.279][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:28.281][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:28.282][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.283][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.286][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.287][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.288][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.291][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.292][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:28.293][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:28.294][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.296][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.298][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.299][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:28.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.316][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-07-06 16:03:28.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:28.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:28.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:28.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:28.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:28.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:28.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:28.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.341][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:28.342][private$selectFields]
biodb.TRACE[2024-07-06 16:03:28.343][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:28.345][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:28.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:28.347][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.349][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.351][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.352][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.354][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.356][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.357][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:28.359][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:28.360][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.361][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.364][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.365][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:28.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:28.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.383][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-07-06 16:03:28.384][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:28.386][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-06 16:03:28.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:28.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:28.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:28.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:28.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:28.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:28.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:28.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:28.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:28.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:28.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:28.559][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:28.564][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:28.565][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:28.568][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:03:28.942][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:03:29.326][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:29.329][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2024-07-06 16:03:29.334][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2024-07-06 16:03:29.339][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:29.343][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:29.345][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:29.347][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:03:29.721][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:03:30.095][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:30.098][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2024-07-06 16:03:30.103][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2024-07-06 16:03:30.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:30.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:30.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:30.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:30.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:30.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:30.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:30.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:30.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:30.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:30.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:30.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:30.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:30.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:30.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:30.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:30.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:30.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:30.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:30.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:30.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:30.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:30.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:30.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:30.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:30.196][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:30.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:30.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:30.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:30.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:30.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:30.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:30.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:30.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.221][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:30.223][private$selectFields]
biodb.TRACE[2024-07-06 16:03:30.224][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:30.225][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:30.226][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:30.227][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.229][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.231][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.232][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.234][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.236][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.237][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:30.239][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:30.240][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.241][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.243][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.245][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:30.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.261][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-06 16:03:30.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:30.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:30.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:30.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:30.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:30.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:30.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:30.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.331][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:30.332][private$selectFields]
biodb.TRACE[2024-07-06 16:03:30.333][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:30.335][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:30.336][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:30.337][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.338][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.341][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.342][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.343][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.346][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.347][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:30.372][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:30.374][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.375][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.377][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.378][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:30.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.395][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:03:30.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:30.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:30.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:30.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:30.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:30.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:30.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:30.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.427][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:30.429][private$selectFields]
biodb.TRACE[2024-07-06 16:03:30.430][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:30.432][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:30.433][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:30.435][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.436][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.438][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.440][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.441][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.443][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.445][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:30.446][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:30.447][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.448][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.451][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.452][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:30.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:30.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:30.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:30.468][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-06 16:03:30.469][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:30.470][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:03:30.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:30.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:30.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:30.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:30.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:30.484][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:30.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:30.488][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:30.493][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:30.494][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:30.497][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:03:30.868][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:03:31.242][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:31.244][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content"
biodb.TRACE[2024-07-06 16:03:31.250][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.request"
biodb.DEBUG[2024-07-06 16:03:31.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:31.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:31.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:31.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:31.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:31.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:31.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:31.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:31.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:31.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:31.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:31.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:31.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:31.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:31.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:31.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:31.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:31.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:31.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:31.283][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:31.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:31.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:31.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:31.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:31.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:31.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:31.296][private$loadEntries] Creating entries from ids [1]: "91601".
biodb.DEBUG[2024-07-06 16:03:31.298][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:31.300][cch$loadFileContent] Trying to load 1 files from cache: [1]: "91601".
biodb.TRACE[2024-07-06 16:03:31.301][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:31.303][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:31.304][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:31.305][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:31.307][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:31.308][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:31.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:31.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:31.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:31.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:31.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:31.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:31.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:31.325][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601".
biodb.DEBUG[2024-07-06 16:03:31.328][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:31.330][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:31.331][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601".
biodb.TRACE[2024-07-06 16:03:31.704][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601).
biodb.DEBUG[2024-07-06 16:03:32.077][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:32.080][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aa7bc0b3048e5fb322307698a3f56fa6.content"
biodb.TRACE[2024-07-06 16:03:32.084][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aa7bc0b3048e5fb322307698a3f56fa6.request"
biodb.TRACE[2024-07-06 16:03:32.088][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91601.xml"
biodb.DEBUG[2024-07-06 16:03:32.090][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:32.091][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:32.093][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:32.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:32.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:32.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:32.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:32.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:32.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:32.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:32.109][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:32.111][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:32.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.113][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:32.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:32.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.119][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:32.121][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:32.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.123][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.124][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:32.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:32.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.129][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:32.131][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:32.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.133][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:32.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:32.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.140][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:32.141][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:32.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.143][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:32.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:32.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.150][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:32.151][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:32.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.153][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.155][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:32.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:32.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.160][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:32.161][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:32.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.163][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.165][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:32.166][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:32.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.168][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.170][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:32.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:32.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.175][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:32.176][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:32.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.178][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:32.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:32.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.185][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:32.186][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:32.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.188][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.190][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:32.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:32.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.195][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:32.196][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:32.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.199][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.200][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:32.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:32.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.205][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:32.206][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:32.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.209][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.210][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:32.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:32.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:32.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:32.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:32.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:32.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:32.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:32.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:32.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:32.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:32.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:32.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:32.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:32.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:32.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:32.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:32.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:32.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:32.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:32.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:32.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:32.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:32.265][self$createEntryFromContent] Accession numbers: 91601.
biodb.TRACE[2024-07-06 16:03:32.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:32.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:32.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:32.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:32.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:32.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:32.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:32.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:32.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:32.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:32.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:32.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:32.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:32.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:32.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:32.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:32.305][private$loadEntries] Creating entries from ids [1]: "95147".
biodb.DEBUG[2024-07-06 16:03:32.307][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:32.309][cch$loadFileContent] Trying to load 1 files from cache: [1]: "95147".
biodb.TRACE[2024-07-06 16:03:32.310][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:32.311][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:32.313][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:32.314][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:32.315][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:32.316][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:32.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:32.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:32.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:32.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:32.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:32.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:32.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:32.332][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147".
biodb.DEBUG[2024-07-06 16:03:32.336][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:32.337][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:32.339][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147".
biodb.TRACE[2024-07-06 16:03:32.714][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147).
biodb.DEBUG[2024-07-06 16:03:33.088][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:33.090][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5dbc153d74635342b8ea0e83790c39e.content"
biodb.TRACE[2024-07-06 16:03:33.095][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5dbc153d74635342b8ea0e83790c39e.request"
biodb.TRACE[2024-07-06 16:03:33.098][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/95147.xml"
biodb.DEBUG[2024-07-06 16:03:33.100][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:33.102][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:33.103][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:33.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:33.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:33.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:33.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:33.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:33.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:33.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:33.120][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:33.121][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:33.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.124][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:33.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:33.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.130][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:33.131][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:33.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.134][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.135][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:33.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:33.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.140][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:33.142][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:33.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.144][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.146][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:33.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:33.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.151][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:33.152][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:33.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.155][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:33.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:33.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.161][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:33.163][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:33.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.165][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.167][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:33.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:33.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.172][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:33.173][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:33.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.176][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.177][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:33.179][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:33.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.181][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.183][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:33.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:33.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.188][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:33.189][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:33.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.192][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:33.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:33.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.199][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:33.200][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:33.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.203][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:33.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:33.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.210][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:33.211][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:33.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.213][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.215][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:33.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:33.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.220][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:33.221][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:33.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.224][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.225][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:33.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:33.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:33.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:33.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:33.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:33.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:33.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:33.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:33.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:33.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:33.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:33.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:33.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:33.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:33.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:33.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:33.283][self$createEntryFromContent] Accession numbers: 95147.
biodb.TRACE[2024-07-06 16:03:33.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:33.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:33.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:33.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:33.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:33.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:33.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:33.299][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:33.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:33.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:33.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:33.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:33.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:33.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:33.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:33.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.324][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:33.325][private$selectFields]
biodb.TRACE[2024-07-06 16:03:33.327][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:33.328][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:33.329][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:33.330][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.332][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.334][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.335][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.336][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.338][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.339][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.340][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:33.341][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:33.342][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.344][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.346][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.347][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:33.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.365][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:03:33.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:33.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:33.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:33.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:33.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:33.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:33.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:33.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.390][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:33.391][private$selectFields]
biodb.TRACE[2024-07-06 16:03:33.393][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:33.394][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:33.395][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:33.396][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.398][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.400][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.402][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.403][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.405][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.407][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:33.408][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:33.409][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.411][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.413][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.415][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:33.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.431][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-07-06 16:03:33.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:33.434][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:33.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:33.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:33.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:33.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:33.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:33.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.456][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:33.457][private$selectFields]
biodb.TRACE[2024-07-06 16:03:33.458][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:33.459][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:33.461][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:33.462][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.463][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.466][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.467][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.471][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.485][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:33.486][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:33.487][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.489][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.491][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.492][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:33.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:33.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:33.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:33.509][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-07-06 16:03:33.510][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:33.512][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:03:33.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:33.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:33.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:33.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:33.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:33.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:33.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:33.529][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:33.533][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:33.535][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:33.537][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:03:33.912][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:03:34.293][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:34.295][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content"
biodb.TRACE[2024-07-06 16:03:34.301][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.request"
biodb.DEBUG[2024-07-06 16:03:34.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:34.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:34.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:34.314][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:34.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:34.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:34.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:34.319][private$loadEntries] Creating entries from ids [1]: "636".
biodb.DEBUG[2024-07-06 16:03:34.321][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:34.323][cch$loadFileContent] Trying to load 1 files from cache: [1]: "636".
biodb.TRACE[2024-07-06 16:03:34.324][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:34.326][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:34.327][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:34.329][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:34.330][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:34.331][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:34.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:34.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:34.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:34.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:34.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:34.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:34.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:34.351][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636".
biodb.DEBUG[2024-07-06 16:03:34.355][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:34.356][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:34.358][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636".
biodb.TRACE[2024-07-06 16:03:34.738][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636).
biodb.DEBUG[2024-07-06 16:03:35.124][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:35.127][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ccb008951a89970d7f0e2dfe6ae3860d.content"
biodb.TRACE[2024-07-06 16:03:35.132][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ccb008951a89970d7f0e2dfe6ae3860d.request"
biodb.TRACE[2024-07-06 16:03:35.136][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/636.xml"
biodb.DEBUG[2024-07-06 16:03:35.139][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:35.140][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:35.142][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:35.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:35.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:35.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:35.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:35.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:35.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:35.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:35.159][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:35.160][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:35.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.162][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:35.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:35.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.169][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:35.171][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:35.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.173][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.175][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:35.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:35.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.180][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:35.181][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:35.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.183][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.185][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:35.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:35.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.190][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:35.191][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:35.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.194][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:35.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:35.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.202][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:35.203][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:35.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.205][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.207][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:35.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:35.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.212][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:35.213][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:35.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.216][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.217][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:35.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:35.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.223][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:35.224][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:35.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.226][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.228][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:35.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:35.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.233][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:35.234][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:35.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.237][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:35.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:35.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.243][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:35.245][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:35.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.247][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:35.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:35.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.254][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:35.255][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:35.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.258][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.259][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:35.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:35.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.264][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:35.266][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:35.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.268][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.270][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:35.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:35.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:35.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:35.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:35.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:35.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:35.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:35.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:35.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:35.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:35.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:35.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:35.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:35.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:35.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:35.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:35.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:35.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:35.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:35.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:35.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:35.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:35.326][self$createEntryFromContent] Accession numbers: 636.
biodb.TRACE[2024-07-06 16:03:35.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:35.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:35.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:35.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:35.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:35.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:35.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:35.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:35.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:35.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:35.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:35.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:35.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:35.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:35.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:35.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:35.357][private$loadEntries] Creating entries from ids [1]: "64199".
biodb.DEBUG[2024-07-06 16:03:35.358][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:35.360][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64199".
biodb.TRACE[2024-07-06 16:03:35.361][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:35.363][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:35.364][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:35.365][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:35.367][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:35.368][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:35.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:35.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:35.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:35.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:35.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:35.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:35.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:35.384][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199".
biodb.DEBUG[2024-07-06 16:03:35.388][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:35.389][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:35.391][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199".
biodb.TRACE[2024-07-06 16:03:35.764][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199).
biodb.DEBUG[2024-07-06 16:03:36.137][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:36.139][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a31cc2b07404761abdda19d4ffeaa880.content"
biodb.TRACE[2024-07-06 16:03:36.144][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a31cc2b07404761abdda19d4ffeaa880.request"
biodb.TRACE[2024-07-06 16:03:36.147][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64199.xml"
biodb.DEBUG[2024-07-06 16:03:36.149][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:36.151][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:36.152][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:36.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:36.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:36.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:36.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:36.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:36.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:36.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:36.169][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:36.170][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:36.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.173][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:36.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:36.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.179][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:36.181][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:36.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.183][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.185][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:36.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:36.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.204][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:36.205][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:36.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.208][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.209][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:36.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:36.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.214][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:36.216][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:36.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.218][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.220][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:36.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:36.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.225][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:36.226][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:36.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.228][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:36.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:36.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.235][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:36.236][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:36.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.239][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.240][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:36.242][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:36.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.244][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.246][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:36.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:36.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.251][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:36.252][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:36.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.254][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:36.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:36.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.261][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:36.262][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:36.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.265][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.267][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:36.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:36.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.272][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:36.273][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:36.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.276][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.277][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:36.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:36.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.282][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:36.284][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:36.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.286][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.287][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:36.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:36.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:36.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:36.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:36.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:36.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:36.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:36.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:36.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:36.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:36.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:36.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:36.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:36.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:36.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:36.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:36.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:36.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:36.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:36.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:36.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:36.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:36.343][self$createEntryFromContent] Accession numbers: 64199.
biodb.TRACE[2024-07-06 16:03:36.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:36.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:36.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:36.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:36.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:36.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:36.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:36.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:36.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:36.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:36.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:36.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:36.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:36.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:36.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:36.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:36.373][private$loadEntries] Creating entries from ids [1]: "65648".
biodb.DEBUG[2024-07-06 16:03:36.374][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:36.376][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65648".
biodb.TRACE[2024-07-06 16:03:36.378][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:36.379][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:36.381][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:36.382][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:36.383][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:36.384][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:36.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:36.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:36.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:36.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:36.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:36.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:36.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:36.401][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648".
biodb.DEBUG[2024-07-06 16:03:36.405][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:36.406][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:36.408][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648".
biodb.TRACE[2024-07-06 16:03:36.782][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648).
biodb.DEBUG[2024-07-06 16:03:38.373][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:38.375][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4176d017d73a3b7cdd77f889aa9b1b1d.content"
biodb.TRACE[2024-07-06 16:03:38.380][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4176d017d73a3b7cdd77f889aa9b1b1d.request"
biodb.TRACE[2024-07-06 16:03:38.384][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65648.xml"
biodb.DEBUG[2024-07-06 16:03:38.386][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:38.388][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:38.389][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:38.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:38.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:38.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:38.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:38.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:38.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:38.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:38.407][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:38.408][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:38.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.411][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:38.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:38.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.417][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:38.419][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:38.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.421][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.423][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:38.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:38.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.428][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:38.429][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:38.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.432][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.434][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:38.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:38.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.439][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:38.440][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:38.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.443][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.444][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:38.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:38.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.450][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:38.451][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:38.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.453][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:38.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:38.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.460][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:38.461][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:38.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.464][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.465][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:38.467][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.469][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.470][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:38.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.476][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:38.477][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:38.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.479][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:38.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:38.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.486][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:38.488][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:38.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.490][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.492][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:38.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:38.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.498][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:38.499][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:38.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.501][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.503][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:38.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:38.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.508][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:38.510][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:38.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.512][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.514][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:38.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:38.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:38.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:38.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:38.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:38.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:38.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:38.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:38.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:38.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:38.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:38.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:38.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:38.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:38.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:38.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:38.570][self$createEntryFromContent] Accession numbers: 65648.
biodb.TRACE[2024-07-06 16:03:38.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:38.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:38.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:38.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:38.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:38.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:38.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:38.587][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:38.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:38.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:38.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:38.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:38.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:38.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:38.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:38.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.621][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:38.622][private$selectFields]
biodb.TRACE[2024-07-06 16:03:38.623][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:38.625][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:38.626][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:38.627][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.628][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.631][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.632][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.633][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.636][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.637][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:38.638][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:38.639][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.641][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.643][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.644][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:38.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.661][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-07-06 16:03:38.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:38.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:38.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:38.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:38.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:38.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:38.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:38.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.686][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:38.687][private$selectFields]
biodb.TRACE[2024-07-06 16:03:38.688][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:38.690][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:38.691][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:38.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.696][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.697][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.698][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.701][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.702][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:38.703][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:38.704][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.706][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.708][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.709][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:38.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.726][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-07-06 16:03:38.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:38.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:38.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:38.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:38.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:38.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:38.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:38.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.751][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:38.752][private$selectFields]
biodb.TRACE[2024-07-06 16:03:38.753][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:38.754][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:38.756][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:38.757][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.758][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.761][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.762][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.763][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.766][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.767][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:38.768][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:38.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.771][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.773][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.774][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:38.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:38.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.791][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2024-07-06 16:03:38.792][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:38.793][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-06 16:03:38.804][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:38.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:38.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.809][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:38.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:38.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.814][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:38.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:38.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-06 16:03:38.824][biodb::testThat]
biodb.INFO [2024-07-06 16:03:38.825][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-07-06 16:03:38.826][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:03:38.827][biodb::testThat]
biodb.TRACE[2024-07-06 16:03:38.831][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:03:38.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:03:38.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.836][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:03:38.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:03:38.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.841][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:03:38.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:03:38.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:38.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:38.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:38.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:38.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:38.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:38.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:38.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:38.926][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:38.930][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:38.932][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-06 16:03:38.934][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:38.936][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-06 16:03:38.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:38.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:38.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:38.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:38.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:38.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:38.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:38.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:38.968][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:38.972][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:38.974][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-06 16:03:38.975][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:38.977][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-06 16:03:38.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:38.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:38.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:38.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:38.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:38.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:38.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:38.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:38.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:38.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:38.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:39.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:39.038][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:39.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.117][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.118][private$selectFields]
biodb.TRACE[2024-07-06 16:03:39.119][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:39.120][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:39.122][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.123][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.124][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.127][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.128][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.129][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.132][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.133][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.134][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.135][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.137][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.138][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.139][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.140][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:39.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.157][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-06 16:03:39.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.182][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.183][private$selectFields]
biodb.TRACE[2024-07-06 16:03:39.184][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:39.185][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:39.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.187][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.189][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.191][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.196][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.197][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.199][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.200][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.201][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.203][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.205][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:39.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.221][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:03:39.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.246][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.247][private$selectFields]
biodb.TRACE[2024-07-06 16:03:39.248][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:39.250][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:39.251][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.252][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.254][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.256][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.257][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.258][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.261][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.262][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.263][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.265][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.266][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.268][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.269][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:39.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.286][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-06 16:03:39.287][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:39.289][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:03:39.291][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:39.307][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:39.311][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:39.313][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-07-06 16:03:39.314][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:39.316][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-07-06 16:03:39.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:39.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:39.377][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:39.381][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:39.382][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-07-06 16:03:39.384][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:39.386][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-07-06 16:03:39.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:39.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:39.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:39.475][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:39.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.485][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.500][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.502][private$selectFields]
biodb.TRACE[2024-07-06 16:03:39.503][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:39.504][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:39.505][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.506][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.508][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.510][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.512][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.513][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.515][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.517][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.518][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.519][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.520][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.523][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.524][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:39.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.546][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:03:39.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.571][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.572][private$selectFields]
biodb.TRACE[2024-07-06 16:03:39.573][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:39.574][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:39.576][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.577][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.578][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.580][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.582][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.585][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.587][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.588][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.589][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.590][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.593][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.594][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:39.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.611][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-07-06 16:03:39.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.637][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.638][private$selectFields]
biodb.TRACE[2024-07-06 16:03:39.639][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:39.640][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:39.641][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.642][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.644][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.646][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.647][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.649][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.651][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.652][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.653][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:39.655][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.658][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.659][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:39.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:39.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.676][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-07-06 16:03:39.677][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:39.678][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:03:39.681][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:39.696][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:39.701][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:39.702][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-07-06 16:03:39.704][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:39.706][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-07-06 16:03:39.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:39.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.751][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:39.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:39.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:39.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:39.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:39.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:39.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:39.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:39.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:39.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:39.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:39.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:39.795][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:39.800][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:39.801][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:39.803][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:03:40.189][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:03:40.659][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:40.662][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dd9d19fb78fcc7453eff2e9dd7ba5702.content"
biodb.TRACE[2024-07-06 16:03:40.667][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dd9d19fb78fcc7453eff2e9dd7ba5702.request"
biodb.DEBUG[2024-07-06 16:03:40.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:40.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:40.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:40.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:40.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:40.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:40.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:40.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:40.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:40.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:40.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:40.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:40.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:40.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:40.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:40.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:40.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:40.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:40.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:40.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:40.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:40.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:40.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:40.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:40.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:40.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:40.715][private$loadEntries] Creating entries from ids [1]: "3017".
biodb.DEBUG[2024-07-06 16:03:40.716][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:40.718][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3017".
biodb.TRACE[2024-07-06 16:03:40.720][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:40.721][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:40.722][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:40.724][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:40.725][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:40.726][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:40.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:40.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:40.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:40.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:40.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:40.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:40.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:40.743][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017".
biodb.DEBUG[2024-07-06 16:03:40.746][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:40.747][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:40.749][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017".
biodb.TRACE[2024-07-06 16:03:41.118][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017).
biodb.DEBUG[2024-07-06 16:03:41.492][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:41.494][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a0d2dadbafdef2154bb32b0db7e287ac.content"
biodb.TRACE[2024-07-06 16:03:41.499][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a0d2dadbafdef2154bb32b0db7e287ac.request"
biodb.TRACE[2024-07-06 16:03:41.502][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3017.xml"
biodb.DEBUG[2024-07-06 16:03:41.504][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:41.506][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:41.507][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:41.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:41.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:41.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:41.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:41.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:41.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:41.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:41.524][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:41.525][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:41.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.528][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:41.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:41.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.534][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:41.536][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:41.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.538][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.540][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:41.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:41.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.545][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:41.546][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:41.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.548][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.550][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:41.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:41.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.566][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:41.567][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:41.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.570][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.571][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:41.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:41.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.576][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:41.578][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:41.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.580][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.582][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:41.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:41.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.587][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:41.588][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:41.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.591][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.592][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:41.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:41.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.597][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:41.599][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:41.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.601][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.603][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:41.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:41.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.608][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:41.609][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:41.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.611][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:41.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:41.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.618][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:41.619][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:41.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.624][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:41.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:41.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.629][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:41.630][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:41.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.633][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.634][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:41.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:41.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.639][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:41.641][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:41.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.643][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.644][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:41.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:41.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:41.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:41.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:41.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:41.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:41.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:41.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:41.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:41.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:41.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:41.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:41.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:41.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:41.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:41.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:41.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:41.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:41.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:41.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:41.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:41.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:41.700][self$createEntryFromContent] Accession numbers: 3017.
biodb.TRACE[2024-07-06 16:03:41.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:41.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:41.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:41.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:41.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:41.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:41.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:41.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:41.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:41.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:41.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:41.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:41.725][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:41.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:41.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:41.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:41.730][private$loadEntries] Creating entries from ids [1]: "3510".
biodb.DEBUG[2024-07-06 16:03:41.731][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:41.733][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3510".
biodb.TRACE[2024-07-06 16:03:41.735][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:41.736][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:41.737][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:41.739][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:41.740][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:41.741][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:41.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:41.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:41.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:41.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:41.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:41.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:41.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:41.759][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510".
biodb.DEBUG[2024-07-06 16:03:41.762][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:41.764][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:41.765][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510".
biodb.TRACE[2024-07-06 16:03:42.141][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510).
biodb.DEBUG[2024-07-06 16:03:42.513][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:42.516][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58362fa70b44eecb6a87afbf9b6dfd8b.content"
biodb.TRACE[2024-07-06 16:03:42.545][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58362fa70b44eecb6a87afbf9b6dfd8b.request"
biodb.TRACE[2024-07-06 16:03:42.549][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3510.xml"
biodb.DEBUG[2024-07-06 16:03:42.552][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:42.554][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:42.556][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:42.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:42.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:42.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:42.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:42.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:42.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:42.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:42.576][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:42.577][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:42.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.580][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:42.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:42.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.588][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:42.590][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:42.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.593][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.594][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:42.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:42.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.600][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:42.601][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:42.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.604][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.605][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:42.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:42.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.611][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:42.612][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:42.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.615][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:42.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:42.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.621][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:42.623][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:42.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.625][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:42.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:42.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.632][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:42.633][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:42.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.635][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.637][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:42.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:42.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.642][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:42.643][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:42.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.646][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.647][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:42.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:42.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.652][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:42.654][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:42.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.656][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:42.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:42.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.663][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:42.664][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:42.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.667][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:42.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:42.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.674][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:42.675][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:42.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.677][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.679][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:42.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:42.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.684][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:42.686][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:42.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.688][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.689][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:42.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:42.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:42.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:42.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:42.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:42.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:42.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:42.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:42.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:42.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:42.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:42.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:42.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:42.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:42.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:42.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:42.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:42.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:42.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:42.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:42.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:42.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:42.746][self$createEntryFromContent] Accession numbers: 3510.
biodb.TRACE[2024-07-06 16:03:42.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:42.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:42.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:42.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:42.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:42.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:42.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:42.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:42.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:42.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:42.764][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:42.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:42.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:42.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:42.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:42.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:42.785][private$loadEntries] Creating entries from ids [1]: "7554".
biodb.DEBUG[2024-07-06 16:03:42.786][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:42.788][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7554".
biodb.TRACE[2024-07-06 16:03:42.790][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:42.791][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:42.792][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:42.794][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:42.795][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:42.796][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:42.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:42.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:42.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:42.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:42.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:42.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:42.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:42.813][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554".
biodb.DEBUG[2024-07-06 16:03:42.817][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:42.818][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:42.820][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554".
biodb.TRACE[2024-07-06 16:03:43.195][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554).
biodb.DEBUG[2024-07-06 16:03:43.576][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:43.578][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66bd6c2472b2485e58ad424b4505cbea.content"
biodb.TRACE[2024-07-06 16:03:43.583][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66bd6c2472b2485e58ad424b4505cbea.request"
biodb.TRACE[2024-07-06 16:03:43.586][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7554.xml"
biodb.DEBUG[2024-07-06 16:03:43.588][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:43.590][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:43.591][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:43.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:43.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:43.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:43.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:43.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:43.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:43.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:43.608][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:43.609][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:43.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.611][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:43.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:43.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.618][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:43.619][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:43.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.623][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:43.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:43.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.628][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:43.630][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:43.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.632][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:43.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:43.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.639][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:43.640][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:43.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.643][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:43.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:43.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.650][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:43.651][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:43.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.654][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.656][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:43.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:43.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.662][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:43.663][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:43.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.666][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.667][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:43.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:43.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.673][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:43.674][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:43.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.677][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.678][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:43.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:43.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.683][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:43.685][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:43.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.687][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:43.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:43.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.694][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:43.695][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:43.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.698][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.699][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:43.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:43.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.705][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:43.706][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:43.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.708][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.710][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:43.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:43.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.715][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:43.717][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:43.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.719][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.721][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:43.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:43.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:43.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:43.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:43.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:43.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:43.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:43.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:43.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:43.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:43.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:43.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:43.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:43.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:43.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:43.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:43.777][self$createEntryFromContent] Accession numbers: 7554.
biodb.TRACE[2024-07-06 16:03:43.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:43.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:43.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:43.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:43.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:43.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:43.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:43.794][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:43.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:43.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:43.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:43.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:43.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:43.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:43.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:43.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.820][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:43.821][private$selectFields]
biodb.TRACE[2024-07-06 16:03:43.822][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:43.824][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:43.825][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:43.826][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.827][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.830][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.831][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.835][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.836][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:43.837][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:43.839][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.840][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.842][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.844][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:43.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.861][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-07-06 16:03:43.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:43.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:43.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:43.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:43.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:43.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:43.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:43.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.886][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:43.887][private$selectFields]
biodb.TRACE[2024-07-06 16:03:43.888][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:43.889][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:43.891][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:43.892][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.893][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.896][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.897][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.898][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.901][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.902][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:43.903][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:43.905][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.906][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.908][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.910][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:43.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.927][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3017].
biodb.DEBUG[2024-07-06 16:03:43.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:43.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:43.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:43.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:43.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:43.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:43.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:43.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.953][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:43.954][private$selectFields]
biodb.TRACE[2024-07-06 16:03:43.955][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:43.957][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:43.958][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:43.959][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.960][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.963][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.964][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.965][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.968][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.974][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:43.979][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:43.980][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.984][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.985][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:43.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:43.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:43.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:43.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.002][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7554].
biodb.DEBUG[2024-07-06 16:03:44.003][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:44.004][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-06 16:03:44.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:44.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:44.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:44.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:44.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:44.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:44.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:44.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:44.092][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:44.096][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:44.098][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-06 16:03:44.100][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:44.101][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-06 16:03:44.105][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:44.109][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:44.111][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-06 16:03:44.112][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:44.114][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-06 16:03:44.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:44.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:44.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:44.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:44.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:44.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:44.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:44.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:44.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:44.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:44.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:44.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:44.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:44.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:44.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:44.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:44.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:44.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:44.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:44.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:44.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:44.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:44.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:44.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:44.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:44.202][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:44.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:44.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:44.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:44.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:44.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:44.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:44.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:44.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.228][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:44.229][private$selectFields]
biodb.TRACE[2024-07-06 16:03:44.230][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:44.231][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:44.233][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:44.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.235][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.238][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.239][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.240][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.242][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.244][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:44.245][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:44.246][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.247][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.250][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.251][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:44.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.267][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-06 16:03:44.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:44.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:44.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:44.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:44.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:44.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:44.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:44.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.292][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:44.293][private$selectFields]
biodb.TRACE[2024-07-06 16:03:44.294][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:44.295][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:44.297][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:44.298][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.299][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.302][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.303][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.304][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.307][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.308][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:44.309][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:44.310][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.312][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.314][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.315][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:44.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.332][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:03:44.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:44.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:44.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:44.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:44.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:44.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:44.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:44.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.357][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:44.358][private$selectFields]
biodb.TRACE[2024-07-06 16:03:44.359][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:44.360][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:44.362][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:44.363][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.364][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.367][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.368][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.369][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.372][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.373][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:44.374][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:44.375][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.379][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.380][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:44.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:44.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:44.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:44.397][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-06 16:03:44.398][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:44.399][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:03:44.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:44.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:44.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:44.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:44.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:44.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:44.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:44.422][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:44.426][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:44.428][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:44.430][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:03:44.813][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:03:45.201][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:45.203][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f88afce5e7bcb0842d474b04c0bef37a.content"
biodb.TRACE[2024-07-06 16:03:45.209][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f88afce5e7bcb0842d474b04c0bef37a.request"
biodb.DEBUG[2024-07-06 16:03:45.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:45.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:45.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:45.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:45.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:45.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:45.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:45.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:45.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:45.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:45.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:45.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:45.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:45.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:45.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:45.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:45.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:45.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:45.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:45.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:45.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:45.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:45.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:45.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:45.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:45.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:45.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:45.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:45.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:45.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:45.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:45.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:45.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:45.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:45.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:45.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:45.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:45.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:45.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:45.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:45.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:45.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:45.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:45.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:45.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:45.282][private$loadEntries] Creating entries from ids [1]: "27495".
biodb.DEBUG[2024-07-06 16:03:45.284][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:45.286][cch$loadFileContent] Trying to load 1 files from cache: [1]: "27495".
biodb.TRACE[2024-07-06 16:03:45.287][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:45.289][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:45.290][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:45.291][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:45.293][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:45.294][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:45.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:45.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:45.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:45.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:45.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:45.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:45.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:45.311][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495".
biodb.DEBUG[2024-07-06 16:03:45.314][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:45.316][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:45.317][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495".
biodb.TRACE[2024-07-06 16:03:45.687][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495).
biodb.DEBUG[2024-07-06 16:03:46.071][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:46.073][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/edda5d46cbbeda6cad9b4593b6925e01.content"
biodb.TRACE[2024-07-06 16:03:46.078][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/edda5d46cbbeda6cad9b4593b6925e01.request"
biodb.TRACE[2024-07-06 16:03:46.081][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/27495.xml"
biodb.DEBUG[2024-07-06 16:03:46.083][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:46.085][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:46.087][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:46.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:46.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:46.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:46.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:46.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:46.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:46.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:46.103][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:46.105][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:46.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.107][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:46.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:46.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.114][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:46.115][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:46.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.117][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.119][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:46.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:46.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.124][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:46.125][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:46.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.128][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.130][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:46.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:46.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.135][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:46.136][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:46.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.138][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:46.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:46.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.145][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:46.146][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:46.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.148][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:46.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:46.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.155][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:46.156][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:46.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.159][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.160][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:46.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:46.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.165][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:46.167][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:46.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.169][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.171][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:46.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:46.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.176][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.177][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.179][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.186][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:46.187][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:46.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.189][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.191][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:46.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:46.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.196][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:46.197][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:46.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.200][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.201][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:46.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:46.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.206][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:46.208][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:46.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.210][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.212][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:46.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:46.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:46.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:46.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:46.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:46.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:46.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:46.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:46.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:46.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:46.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:46.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:46.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:46.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:46.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:46.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:46.266][self$createEntryFromContent] Accession numbers: 27495.
biodb.TRACE[2024-07-06 16:03:46.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:46.282][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:46.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:46.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:46.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:46.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:46.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:46.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:46.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:46.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.309][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:46.310][private$selectFields]
biodb.TRACE[2024-07-06 16:03:46.311][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:46.312][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:46.314][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:46.315][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.316][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.319][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.320][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.322][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.324][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.325][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:46.327][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:46.328][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.329][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.332][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.333][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:46.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.350][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-07-06 16:03:46.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:46.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:46.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:46.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:46.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:46.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:46.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:46.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.385][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:46.386][private$selectFields]
biodb.TRACE[2024-07-06 16:03:46.388][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:46.389][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:46.390][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:46.391][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.392][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.395][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.396][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.397][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.400][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.401][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:46.402][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:46.403][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.405][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.407][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.408][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:46.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.425][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-07-06 16:03:46.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:46.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:46.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:46.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:46.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:46.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:46.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:46.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.449][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:46.450][private$selectFields]
biodb.TRACE[2024-07-06 16:03:46.451][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:46.452][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:46.453][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:46.454][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.458][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.459][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.460][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.463][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.464][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:46.465][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:46.466][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.467][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.470][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.471][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:46.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:46.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.487][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [27495].
biodb.DEBUG[2024-07-06 16:03:46.488][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:46.489][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:03:46.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:46.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:46.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:46.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:46.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:46.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:46.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:46.506][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:46.510][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:46.512][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-07-06 16:03:46.513][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:46.515][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-07-06 16:03:46.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:46.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:46.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:46.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:46.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:46.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:46.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:46.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:46.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:46.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:46.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:46.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:46.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:46.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:46.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:46.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:46.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:46.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:46.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:46.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:46.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:46.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:46.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:46.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:46.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:46.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:46.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:46.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:46.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:46.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:46.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:46.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:46.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:46.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:46.614][private$loadEntries] Creating entries from ids [1]: "65675".
biodb.DEBUG[2024-07-06 16:03:46.615][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:46.617][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65675".
biodb.TRACE[2024-07-06 16:03:46.619][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:46.620][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:46.622][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:46.623][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:46.624][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:46.625][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:46.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:46.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:46.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:46.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:46.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:46.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:46.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:46.642][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675".
biodb.DEBUG[2024-07-06 16:03:46.646][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:46.647][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:46.649][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675".
biodb.TRACE[2024-07-06 16:03:47.031][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675).
biodb.DEBUG[2024-07-06 16:03:47.415][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:47.418][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5e9eb5601826c5f1539c216fc81b6e57.content"
biodb.TRACE[2024-07-06 16:03:47.422][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5e9eb5601826c5f1539c216fc81b6e57.request"
biodb.TRACE[2024-07-06 16:03:47.425][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65675.xml"
biodb.DEBUG[2024-07-06 16:03:47.427][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:47.429][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:47.430][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:47.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:47.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:47.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:47.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:47.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:47.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:47.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:47.447][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:47.448][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:47.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.450][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:47.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:47.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.457][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:47.458][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:47.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.461][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.462][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:47.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:47.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.467][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:47.469][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:47.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.471][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.472][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:47.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:47.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.478][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:47.479][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:47.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.481][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.483][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:47.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:47.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.488][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:47.489][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:47.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.491][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:47.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:47.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.498][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:47.499][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:47.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.502][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.503][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:47.505][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:47.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.507][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.508][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:47.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:47.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.513][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:47.515][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:47.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.517][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:47.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:47.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.524][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:47.525][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:47.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.527][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.529][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:47.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:47.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.534][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:47.536][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:47.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.538][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.539][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:47.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:47.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.544][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:47.546][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:47.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.556][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.558][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:47.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:47.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:47.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:47.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:47.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:47.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:47.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:47.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:47.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:47.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:47.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:47.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:47.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:47.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:47.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:47.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:47.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:47.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:47.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:47.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:47.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:47.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:47.612][self$createEntryFromContent] Accession numbers: 65675.
biodb.TRACE[2024-07-06 16:03:47.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:47.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:47.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:47.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:47.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:47.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:47.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:47.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:47.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:47.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:47.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:47.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:47.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:47.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:47.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:47.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:47.641][private$loadEntries] Creating entries from ids [1]: "66318".
biodb.DEBUG[2024-07-06 16:03:47.642][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:47.644][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66318".
biodb.TRACE[2024-07-06 16:03:47.646][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:47.647][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:47.649][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:47.650][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:47.651][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:47.652][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:47.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:47.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:47.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:47.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:47.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:47.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:47.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:47.669][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318".
biodb.DEBUG[2024-07-06 16:03:47.672][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:47.673][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:47.675][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318".
biodb.TRACE[2024-07-06 16:03:48.052][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318).
biodb.DEBUG[2024-07-06 16:03:48.422][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:48.425][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f7af403e0af2ad309d5e7b7572ad9eab.content"
biodb.TRACE[2024-07-06 16:03:48.429][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f7af403e0af2ad309d5e7b7572ad9eab.request"
biodb.TRACE[2024-07-06 16:03:48.432][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66318.xml"
biodb.DEBUG[2024-07-06 16:03:48.434][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:48.436][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:48.437][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:48.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:48.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:48.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:48.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:48.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:48.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:48.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:48.454][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:48.455][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:48.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.458][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:48.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:48.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.464][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:48.466][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:48.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.468][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.470][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:48.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:48.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.475][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:48.476][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:48.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.478][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.480][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:48.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:48.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.485][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:48.486][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:48.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.489][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:48.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:48.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.496][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:48.497][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:48.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.499][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:48.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:48.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.506][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:48.508][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:48.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.510][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.512][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:48.513][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:48.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.515][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.517][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:48.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:48.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.522][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:48.523][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:48.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.526][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:48.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:48.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.533][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:48.534][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:48.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.536][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.538][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:48.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:48.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.543][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:48.545][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:48.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.547][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.549][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:48.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:48.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.554][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:48.555][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:48.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.558][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.559][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:48.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:48.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:48.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:48.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:48.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:48.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:48.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:48.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:48.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:48.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:48.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:48.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:48.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:48.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:48.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:48.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:48.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:48.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:48.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:48.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:48.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:48.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:48.616][self$createEntryFromContent] Accession numbers: 66318.
biodb.TRACE[2024-07-06 16:03:48.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:48.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:48.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:48.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:48.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:48.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:48.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:48.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:48.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:48.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:48.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:48.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:48.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:48.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:48.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:48.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:48.646][private$loadEntries] Creating entries from ids [1]: "67547".
biodb.DEBUG[2024-07-06 16:03:48.647][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:48.649][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67547".
biodb.TRACE[2024-07-06 16:03:48.651][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:48.652][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:48.654][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:48.655][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:48.656][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:48.658][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:48.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:48.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:48.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:48.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:48.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:48.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:48.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:48.675][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547".
biodb.DEBUG[2024-07-06 16:03:48.678][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:48.680][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:48.682][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547".
biodb.TRACE[2024-07-06 16:03:49.065][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547).
biodb.DEBUG[2024-07-06 16:03:49.528][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:49.531][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5dcb6d289b29a3e5a91ef3f664ac8354.content"
biodb.TRACE[2024-07-06 16:03:49.535][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5dcb6d289b29a3e5a91ef3f664ac8354.request"
biodb.TRACE[2024-07-06 16:03:49.538][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67547.xml"
biodb.DEBUG[2024-07-06 16:03:49.540][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:49.542][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:49.543][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:49.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:49.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:49.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:49.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:49.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:49.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:49.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:49.560][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:49.561][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:49.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.564][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:49.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:49.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.581][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:49.583][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:49.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.585][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.587][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:49.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:49.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.592][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:49.593][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:49.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.596][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.597][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:49.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:49.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.602][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:49.604][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:49.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.606][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:49.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:49.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.612][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:49.614][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:49.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.616][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:49.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:49.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.623][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:49.624][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:49.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.627][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.628][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:49.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:49.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.633][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:49.635][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:49.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.637][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.638][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:49.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:49.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.644][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:49.645][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:49.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.647][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:49.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:49.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.654][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:49.655][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:49.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.658][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.659][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:49.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:49.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.664][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:49.666][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:49.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.668][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.670][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:49.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:49.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.675][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:49.676][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:49.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.678][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.680][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:49.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:49.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:49.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:49.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:49.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:49.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:49.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:49.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:49.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:49.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:49.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:49.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:49.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:49.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:49.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:49.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:49.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:49.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:49.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:49.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:49.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:49.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:49.735][self$createEntryFromContent] Accession numbers: 67547.
biodb.TRACE[2024-07-06 16:03:49.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:49.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:49.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:49.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:49.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:49.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:49.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:49.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:49.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:49.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:49.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:49.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:49.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:49.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:49.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:49.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:49.764][private$loadEntries] Creating entries from ids [1]: "69550".
biodb.DEBUG[2024-07-06 16:03:49.766][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:49.768][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69550".
biodb.TRACE[2024-07-06 16:03:49.769][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:49.771][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:49.772][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:49.773][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:49.774][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:49.776][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:49.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:49.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:49.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:49.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:49.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:49.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:49.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:49.792][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550".
biodb.DEBUG[2024-07-06 16:03:49.796][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:49.797][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:49.799][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550".
biodb.TRACE[2024-07-06 16:03:50.172][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550).
biodb.DEBUG[2024-07-06 16:03:50.546][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:50.549][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/05703421c7bf99b1d8473c1de6165168.content"
biodb.TRACE[2024-07-06 16:03:50.553][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/05703421c7bf99b1d8473c1de6165168.request"
biodb.TRACE[2024-07-06 16:03:50.557][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69550.xml"
biodb.DEBUG[2024-07-06 16:03:50.559][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:50.561][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:50.562][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:50.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:50.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:50.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:50.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:50.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:50.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:50.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:50.579][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:50.581][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:50.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.583][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:50.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:50.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.590][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:50.591][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:50.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.593][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.595][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:50.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:50.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.600][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:50.601][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:50.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.604][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.605][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:50.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:50.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.611][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:50.612][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:50.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.614][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:50.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:50.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.621][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:50.622][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:50.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.625][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:50.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:50.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.631][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:50.633][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:50.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.635][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.637][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:50.638][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:50.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.640][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.642][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:50.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:50.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.647][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:50.648][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:50.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.651][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:50.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:50.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.658][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:50.659][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:50.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.662][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.663][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:50.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:50.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.669][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:50.670][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:50.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.672][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.674][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:50.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:50.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.679][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:50.680][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:50.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.683][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.684][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:50.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:50.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:50.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:50.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:50.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:50.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:50.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:50.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:50.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:50.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:50.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:50.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:50.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:50.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:50.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:50.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:50.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:50.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:50.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:50.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:50.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:50.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:50.743][self$createEntryFromContent] Accession numbers: 69550.
biodb.TRACE[2024-07-06 16:03:50.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:50.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:50.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:50.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:50.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:50.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:50.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:50.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:50.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:50.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:50.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:50.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:50.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:50.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:50.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:50.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:50.781][private$loadEntries] Creating entries from ids [1]: "71520".
biodb.DEBUG[2024-07-06 16:03:50.783][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:50.785][cch$loadFileContent] Trying to load 1 files from cache: [1]: "71520".
biodb.TRACE[2024-07-06 16:03:50.786][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:50.788][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:50.789][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:50.791][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:50.792][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:50.794][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:50.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:50.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:50.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:50.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:50.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:50.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:50.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:50.810][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520".
biodb.DEBUG[2024-07-06 16:03:50.814][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:50.815][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:50.817][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520".
biodb.TRACE[2024-07-06 16:03:51.223][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520).
biodb.DEBUG[2024-07-06 16:03:51.593][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:51.595][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7ceab0ba86590faa4ea87df2e390610.content"
biodb.TRACE[2024-07-06 16:03:51.600][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7ceab0ba86590faa4ea87df2e390610.request"
biodb.TRACE[2024-07-06 16:03:51.603][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/71520.xml"
biodb.DEBUG[2024-07-06 16:03:51.605][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:51.607][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:51.608][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:51.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:51.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:51.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:51.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:51.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:51.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:51.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:51.624][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:51.626][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:51.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.628][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:51.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:51.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.634][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:51.636][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:51.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.638][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.639][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:51.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:51.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.644][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:51.646][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:51.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.648][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.649][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:51.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:51.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.654][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:51.656][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:51.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.658][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.659][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:51.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:51.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.664][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:51.666][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:51.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.668][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:51.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:51.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.674][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:51.676][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:51.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.678][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.680][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:51.681][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:51.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.683][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.685][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:51.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:51.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.690][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:51.691][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:51.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.694][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:51.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:51.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.701][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:51.702][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:51.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.704][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:51.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:51.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.711][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:51.712][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:51.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.715][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.716][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:51.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:51.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.721][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:51.723][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:51.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.725][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.727][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:51.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:51.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:51.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:51.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:51.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:51.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:51.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:51.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:51.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:51.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:51.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:51.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:51.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:51.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:51.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:51.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:51.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:51.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:51.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:51.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:51.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:51.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:51.781][self$createEntryFromContent] Accession numbers: 71520.
biodb.TRACE[2024-07-06 16:03:51.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:51.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:51.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:51.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:51.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:51.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:51.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:51.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:51.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:51.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:51.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:51.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:51.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:51.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:51.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:51.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:51.810][private$loadEntries] Creating entries from ids [1]: "77600".
biodb.DEBUG[2024-07-06 16:03:51.811][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:51.813][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77600".
biodb.TRACE[2024-07-06 16:03:51.815][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:51.816][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:51.817][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:51.819][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:51.820][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:51.821][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:51.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:51.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:51.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:51.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:51.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:51.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:51.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:51.837][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600".
biodb.DEBUG[2024-07-06 16:03:51.841][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:51.842][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:51.844][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600".
biodb.TRACE[2024-07-06 16:03:52.212][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600).
biodb.DEBUG[2024-07-06 16:03:52.587][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:52.589][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91aa415bb91d90afd912e94b5d252faa.content"
biodb.TRACE[2024-07-06 16:03:52.594][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91aa415bb91d90afd912e94b5d252faa.request"
biodb.TRACE[2024-07-06 16:03:52.597][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77600.xml"
biodb.DEBUG[2024-07-06 16:03:52.599][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:52.601][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:52.603][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:52.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:52.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:52.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:52.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:52.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:52.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:52.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:52.620][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:52.622][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:52.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.624][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:52.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:52.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.631][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:52.632][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:52.633][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.635][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.636][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:52.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:52.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.642][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:52.643][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:52.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.645][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.647][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:52.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:52.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.652][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:52.654][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:52.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.656][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.658][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:52.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:52.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.663][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:52.664][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:52.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.667][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:52.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:52.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.673][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:52.675][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:52.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.677][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.679][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:52.680][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:52.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.683][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.684][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:52.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:52.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.689][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:52.691][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:52.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.693][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:52.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:52.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.712][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:52.713][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:52.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.716][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.718][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:52.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:52.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.723][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:52.724][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:52.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.726][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.728][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:52.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:52.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.733][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:52.734][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:52.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.736][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.738][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:52.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:52.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:52.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:52.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:52.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:52.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:52.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:52.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:52.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:52.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:52.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:52.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:52.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:52.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:52.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:52.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:52.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:52.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:52.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:52.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:52.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:52.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:52.792][self$createEntryFromContent] Accession numbers: 77600.
biodb.TRACE[2024-07-06 16:03:52.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:52.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:52.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:52.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:52.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:52.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:52.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:52.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:52.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:52.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:52.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:52.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:52.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:52.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:52.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:52.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:52.821][private$loadEntries] Creating entries from ids [1]: "77601".
biodb.DEBUG[2024-07-06 16:03:52.822][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:52.824][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77601".
biodb.TRACE[2024-07-06 16:03:52.826][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:52.827][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:52.828][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:52.830][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:52.831][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:52.832][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:52.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:52.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:52.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:52.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:52.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:52.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:52.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:52.849][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601".
biodb.DEBUG[2024-07-06 16:03:52.852][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:52.853][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:52.855][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601".
biodb.TRACE[2024-07-06 16:03:53.234][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601).
biodb.DEBUG[2024-07-06 16:03:53.608][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:53.611][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ff0e48db0e5117b4127b12d15d1485a8.content"
biodb.TRACE[2024-07-06 16:03:53.615][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ff0e48db0e5117b4127b12d15d1485a8.request"
biodb.TRACE[2024-07-06 16:03:53.619][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77601.xml"
biodb.DEBUG[2024-07-06 16:03:53.621][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:53.622][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:53.624][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:53.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:53.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:53.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:53.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:53.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:53.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:53.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:53.641][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:53.642][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:53.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.644][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:53.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:53.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.651][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:53.652][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:53.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.655][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.656][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:53.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:53.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.661][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:53.663][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:53.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.665][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.667][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:53.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:53.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.672][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:53.673][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:53.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.676][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:53.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:53.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.682][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:53.684][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:53.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.686][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.687][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:53.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:53.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.692][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:53.694][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:53.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.696][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.698][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:53.699][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:53.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.701][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.703][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:53.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:53.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.708][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:53.709][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:53.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.712][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:53.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:53.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.718][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:53.719][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:53.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.722][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.723][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:53.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:53.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.729][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:53.730][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:53.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.732][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.734][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:53.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:53.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.739][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:53.740][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:53.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.743][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.744][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:53.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:53.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:53.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:53.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:53.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:53.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:53.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:53.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:53.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:53.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:53.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:53.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:53.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:53.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:53.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:53.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:53.799][self$createEntryFromContent] Accession numbers: 77601.
biodb.TRACE[2024-07-06 16:03:53.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:53.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:53.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:53.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:53.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:53.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:53.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:53.816][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:53.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:53.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:53.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:53.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:53.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:53.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:53.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:53.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.841][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:53.842][private$selectFields]
biodb.TRACE[2024-07-06 16:03:53.843][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:53.845][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:53.846][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:53.847][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.851][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.852][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.853][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.856][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.857][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:53.858][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:53.859][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.861][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.863][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.864][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:53.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.889][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-07-06 16:03:53.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:53.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:53.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:53.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:53.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:53.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:53.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:53.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.913][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:53.915][private$selectFields]
biodb.TRACE[2024-07-06 16:03:53.916][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:53.917][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:53.918][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:53.919][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.921][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.923][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.924][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.926][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.928][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.929][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:53.930][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:53.932][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.933][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.935][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.936][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:53.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.953][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [77600].
biodb.DEBUG[2024-07-06 16:03:53.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:53.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:53.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:53.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:53.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:53.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:53.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:53.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.977][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:53.978][private$selectFields]
biodb.TRACE[2024-07-06 16:03:53.979][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:53.981][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:53.982][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:53.983][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.984][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.987][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.988][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.989][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.992][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:53.993][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:53.994][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:53.995][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.997][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:53.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:53.999][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.000][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:54.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.017][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [77601].
biodb.DEBUG[2024-07-06 16:03:54.018][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:54.020][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-06 16:03:54.031][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:54.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:54.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.036][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:54.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:54.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.041][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:54.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:54.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-06 16:03:54.050][biodb::testThat]
biodb.INFO [2024-07-06 16:03:54.052][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-07-06 16:03:54.053][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:03:54.054][biodb::testThat]
biodb.TRACE[2024-07-06 16:03:54.058][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:03:54.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:03:54.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.063][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:03:54.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:03:54.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.068][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:03:54.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:03:54.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:54.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:54.156][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:54.160][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:54.162][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-06 16:03:54.164][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:54.165][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-06 16:03:54.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:54.198][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:54.203][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:54.204][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-06 16:03:54.206][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:54.207][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-06 16:03:54.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:54.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.240][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.248][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:54.268][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:54.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.294][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.295][private$selectFields]
biodb.TRACE[2024-07-06 16:03:54.296][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:54.298][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:54.299][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.300][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.302][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.303][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.304][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.305][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.307][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.309][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.311][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.312][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.313][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.315][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.317][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.324][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:54.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.341][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-06 16:03:54.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.366][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.367][private$selectFields]
biodb.TRACE[2024-07-06 16:03:54.368][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:54.370][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:54.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.372][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.373][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.376][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.377][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.381][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.382][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.383][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.384][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.386][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.388][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.389][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:54.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.406][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:03:54.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.430][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.431][private$selectFields]
biodb.TRACE[2024-07-06 16:03:54.433][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:54.434][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:54.435][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.436][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.438][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.440][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.441][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.443][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.445][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.446][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.447][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.450][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.452][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.454][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:54.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.470][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-06 16:03:54.472][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:54.473][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:03:54.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:54.491][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:54.495][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:54.497][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-07-06 16:03:54.499][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:54.500][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-07-06 16:03:54.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:54.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:54.562][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:54.566][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:54.568][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-07-06 16:03:54.569][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:54.571][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-07-06 16:03:54.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:54.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:54.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:54.663][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:54.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.688][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.689][private$selectFields]
biodb.TRACE[2024-07-06 16:03:54.690][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:54.692][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:54.693][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.694][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.695][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.698][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.699][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.700][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.703][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.704][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.705][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.707][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.708][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.710][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.712][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:54.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.728][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:03:54.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.759][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.761][private$selectFields]
biodb.TRACE[2024-07-06 16:03:54.762][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:54.763][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:54.765][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.766][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.767][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.770][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.775][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.776][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.777][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.778][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.782][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.783][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:54.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.800][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-07-06 16:03:54.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.825][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.826][private$selectFields]
biodb.TRACE[2024-07-06 16:03:54.827][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:54.828][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:54.829][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.830][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.834][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.835][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.837][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.839][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.840][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.842][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:54.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.846][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.848][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:54.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:54.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.864][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-07-06 16:03:54.865][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:54.866][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:03:54.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:54.884][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:54.888][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:54.890][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-07-06 16:03:54.891][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:54.893][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-07-06 16:03:54.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:54.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:54.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:54.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:54.982][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:54.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:54.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:54.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:54.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:54.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:54.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:54.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:54.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:54.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.121][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:55.126][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:55.127][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-07-06 16:03:55.129][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:55.131][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-07-06 16:03:55.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:55.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.223][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:55.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.247][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.248][private$selectFields]
biodb.TRACE[2024-07-06 16:03:55.249][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:55.251][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:55.252][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.253][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.254][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.257][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.258][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.261][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.263][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.264][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.265][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.266][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.269][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.270][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:55.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.286][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-07-06 16:03:55.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.310][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.311][private$selectFields]
biodb.TRACE[2024-07-06 16:03:55.312][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:55.314][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:55.315][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.316][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.317][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.320][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.321][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.322][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.325][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.326][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.327][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.328][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.329][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.332][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.333][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:55.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.350][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-07-06 16:03:55.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.374][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.375][private$selectFields]
biodb.TRACE[2024-07-06 16:03:55.376][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:55.377][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:55.378][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.380][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.383][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.385][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.386][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.388][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.389][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.391][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.392][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.393][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.396][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.397][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:55.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.414][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-07-06 16:03:55.415][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:55.416][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-06 16:03:55.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:55.521][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:55.525][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:55.527][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-06 16:03:55.529][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:55.530][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-06 16:03:55.534][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:55.538][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:55.540][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-06 16:03:55.541][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:55.543][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-06 16:03:55.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.604][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.620][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.637][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:55.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.663][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.664][private$selectFields]
biodb.TRACE[2024-07-06 16:03:55.665][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:55.666][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:55.668][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.669][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.670][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.672][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.674][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.675][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.677][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.679][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.680][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.681][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.682][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.685][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.686][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:55.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.703][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-06 16:03:55.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.728][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.729][private$selectFields]
biodb.TRACE[2024-07-06 16:03:55.730][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:55.731][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:55.732][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.734][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.735][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.738][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.743][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.744][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.745][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.747][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.748][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.750][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.752][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:55.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.769][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:03:55.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.795][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.796][private$selectFields]
biodb.TRACE[2024-07-06 16:03:55.797][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:55.798][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:55.799][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.801][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.805][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.807][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.810][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.811][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.812][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.813][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.815][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.817][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.819][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:55.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.837][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-06 16:03:55.838][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:55.839][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:03:55.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:55.858][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:55.862][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:55.864][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-07-06 16:03:55.865][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:55.867][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-07-06 16:03:55.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.881][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:55.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:55.958][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:55.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:55.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:55.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:55.969][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:55.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:55.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:55.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:55.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.985][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.986][private$selectFields]
biodb.TRACE[2024-07-06 16:03:55.987][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:55.988][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:55.990][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:55.991][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.992][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:55.995][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:55.996][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.997][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:55.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.000][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.001][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.003][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.004][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.005][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.008][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.009][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:56.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.026][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:03:56.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:56.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:56.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:56.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:56.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:56.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:56.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:56.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.058][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.059][private$selectFields]
biodb.TRACE[2024-07-06 16:03:56.061][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:56.062][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:56.063][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.064][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.068][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.073][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.074][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.075][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.076][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.078][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.080][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.081][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:56.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.097][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-07-06 16:03:56.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:56.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:56.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:56.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:56.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:56.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:56.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:56.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.122][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.123][private$selectFields]
biodb.TRACE[2024-07-06 16:03:56.125][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:56.126][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:56.127][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.128][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.129][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.132][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.133][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.134][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.137][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.138][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.139][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.140][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.141][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.144][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.145][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:56.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.162][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-07-06 16:03:56.163][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:56.165][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:03:56.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:56.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:56.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:56.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:56.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:56.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:56.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:56.183][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:56.187][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:03:56.188][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-07-06 16:03:56.190][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:03:56.192][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-07-06 16:03:56.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:56.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:56.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:56.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:56.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:56.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:56.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:56.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:56.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:56.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:56.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:56.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:56.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:56.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:56.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:56.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:56.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:56.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:56.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:56.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:56.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:56.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:56.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:56.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:56.282][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:03:56.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:56.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:56.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:56.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:56.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:56.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:56.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:56.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.308][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.309][private$selectFields]
biodb.TRACE[2024-07-06 16:03:56.310][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:56.311][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:56.313][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.314][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.315][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.318][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.319][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.320][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.323][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.324][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.325][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.326][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.330][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.331][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:56.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.348][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-07-06 16:03:56.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:56.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:56.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:56.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:56.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:56.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:56.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:56.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.373][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.374][private$selectFields]
biodb.TRACE[2024-07-06 16:03:56.376][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:56.377][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:56.378][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.379][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.383][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.384][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.386][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.388][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.389][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.390][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.392][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.393][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.395][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.397][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:56.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.413][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-07-06 16:03:56.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:56.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:56.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:56.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:56.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:56.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:56.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:56.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.438][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.440][private$selectFields]
biodb.TRACE[2024-07-06 16:03:56.441][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:03:56.442][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:03:56.443][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.444][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.446][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.448][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.451][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.453][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.454][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.456][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:03:56.457][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.458][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.461][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.462][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:03:56.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:56.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.485][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2024-07-06 16:03:56.486][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:03:56.488][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-06 16:03:56.514][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:56.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:56.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.519][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:56.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:56.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.524][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:56.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:03:56.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.533][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:56.534][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:56.536][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.537][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.538][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.539][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:56.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.542][ef$get] fields variable is a list.
biodb.INFO [2024-07-06 16:03:56.544][biodb::testThat]
biodb.INFO [2024-07-06 16:03:56.545][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2024-07-06 16:03:56.546][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:03:56.547][biodb::testThat]
biodb.TRACE[2024-07-06 16:03:56.551][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:03:56.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:03:56.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.556][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:03:56.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:03:56.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.561][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:03:56.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:03:56.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:56.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:56.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:56.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:56.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:56.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:56.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:56.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:56.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:56.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:56.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:56.645][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:03:56.649][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:56.651][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:56.653][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:03:57.035][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:03:57.499][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:57.502][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.content"
biodb.TRACE[2024-07-06 16:03:57.507][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.request"
biodb.DEBUG[2024-07-06 16:03:57.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:57.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:57.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:57.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:57.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:57.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:57.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:57.528][private$loadEntries] Creating entries from ids [1]: "3014".
biodb.DEBUG[2024-07-06 16:03:57.529][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:57.531][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3014".
biodb.TRACE[2024-07-06 16:03:57.533][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:57.534][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:57.535][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:57.537][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:57.538][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:57.539][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:57.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:57.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:57.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:57.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:57.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:57.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:57.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:57.556][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014".
biodb.DEBUG[2024-07-06 16:03:57.560][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:57.561][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:57.563][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014".
biodb.TRACE[2024-07-06 16:03:57.937][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014).
biodb.DEBUG[2024-07-06 16:03:58.308][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:58.310][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/48c0bb0df5de824dbe83babbff8d81fe.content"
biodb.TRACE[2024-07-06 16:03:58.315][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/48c0bb0df5de824dbe83babbff8d81fe.request"
biodb.TRACE[2024-07-06 16:03:58.318][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3014.xml"
biodb.DEBUG[2024-07-06 16:03:58.320][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:58.322][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:58.323][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:58.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:58.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:58.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:58.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:58.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:58.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:58.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:58.340][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:58.341][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:58.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.344][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:58.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:58.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.351][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:58.352][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:58.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.354][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.356][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:58.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:58.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.361][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:58.362][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:58.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.365][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.367][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:58.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:58.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.372][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:58.373][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:58.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.376][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:58.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:58.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.382][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:58.384][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:58.385][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.386][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:58.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:58.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.393][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:58.394][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:58.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.396][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.398][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:58.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:58.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.403][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:58.405][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:58.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.407][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.408][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:58.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:58.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.414][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:58.415][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:58.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.417][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:58.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:58.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.424][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:58.426][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:58.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.428][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.430][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:58.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:58.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.435][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:58.436][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:58.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.439][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.440][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:58.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:58.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.446][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:58.447][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:58.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.449][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.451][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:58.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:58.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:58.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:58.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:58.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:58.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:58.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:58.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:58.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:58.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:58.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:58.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:58.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:58.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:58.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:58.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:58.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:58.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:58.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:58.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:58.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:58.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:58.540][self$createEntryFromContent] Accession numbers: 3014.
biodb.TRACE[2024-07-06 16:03:58.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:58.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:58.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:58.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:58.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:58.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:58.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:58.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:58.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:58.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:58.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:58.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:58.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:58.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:58.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:58.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:58.570][private$loadEntries] Creating entries from ids [1]: "7567".
biodb.DEBUG[2024-07-06 16:03:58.571][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:58.573][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7567".
biodb.TRACE[2024-07-06 16:03:58.575][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:58.576][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:58.578][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:58.579][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:58.580][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:58.581][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:58.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:58.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:58.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:58.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:58.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:58.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:58.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:58.598][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567".
biodb.DEBUG[2024-07-06 16:03:58.602][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:58.603][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:58.605][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567".
biodb.TRACE[2024-07-06 16:03:58.991][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567).
biodb.DEBUG[2024-07-06 16:03:59.363][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:03:59.366][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5365299c16307afdd0b9fe7b73b123c.content"
biodb.TRACE[2024-07-06 16:03:59.370][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5365299c16307afdd0b9fe7b73b123c.request"
biodb.TRACE[2024-07-06 16:03:59.373][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7567.xml"
biodb.DEBUG[2024-07-06 16:03:59.375][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:03:59.377][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:03:59.378][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:03:59.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:59.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:59.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:59.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:59.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:59.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:59.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:03:59.394][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:59.396][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:59.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.398][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:59.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:59.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.405][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:59.406][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:59.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.409][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.410][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:03:59.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:03:59.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.416][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:59.417][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:59.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.419][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.421][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:03:59.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:03:59.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.426][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:59.427][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:59.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.430][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.431][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:03:59.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:03:59.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.437][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:59.438][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:59.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.440][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:03:59.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:03:59.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.447][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:59.448][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:59.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.451][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.452][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:59.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:03:59.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.457][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:59.459][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:59.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.461][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.463][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:03:59.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:59.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.468][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:59.469][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:59.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.472][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:59.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:03:59.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.479][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:59.480][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:59.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.482][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:03:59.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:03:59.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.490][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:59.492][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:59.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.495][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.496][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:03:59.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:03:59.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.501][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:59.503][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:59.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.505][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.507][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:03:59.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:03:59.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:59.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:59.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:59.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:59.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:59.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:59.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:03:59.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:03:59.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:59.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:59.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:59.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:59.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:59.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:59.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:59.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:59.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:59.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:59.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:03:59.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:03:59.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:59.565][self$createEntryFromContent] Accession numbers: 7567.
biodb.TRACE[2024-07-06 16:03:59.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:59.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:59.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:59.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:59.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:03:59.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:59.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:03:59.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:03:59.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:03:59.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:59.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:59.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:59.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:59.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:59.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:59.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:59.596][private$loadEntries] Creating entries from ids [1]: "8021".
biodb.DEBUG[2024-07-06 16:03:59.597][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:03:59.599][cch$loadFileContent] Trying to load 1 files from cache: [1]: "8021".
biodb.TRACE[2024-07-06 16:03:59.601][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:03:59.602][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:03:59.604][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:03:59.605][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:03:59.606][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:03:59.607][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:03:59.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:03:59.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:03:59.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:03:59.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:03:59.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:03:59.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:03:59.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:03:59.626][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021".
biodb.DEBUG[2024-07-06 16:03:59.630][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:03:59.631][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:03:59.633][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021".
biodb.TRACE[2024-07-06 16:04:00.010][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021).
biodb.DEBUG[2024-07-06 16:04:00.383][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:00.386][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6017fc384c334739eec9b216fa851a5.content"
biodb.TRACE[2024-07-06 16:04:00.391][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6017fc384c334739eec9b216fa851a5.request"
biodb.TRACE[2024-07-06 16:04:00.395][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8021.xml"
biodb.DEBUG[2024-07-06 16:04:00.397][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:00.399][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:00.401][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:00.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:00.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:00.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:00.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:00.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:00.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:00.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:00.421][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:00.423][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:00.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.426][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:00.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:00.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.434][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:00.435][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:00.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.438][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.440][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:00.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:00.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.446][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:00.447][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:00.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.450][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.452][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:00.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:00.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.458][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:00.459][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:00.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.462][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.464][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:00.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:00.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.470][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:00.471][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:00.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.473][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:00.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:00.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.492][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:00.493][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:00.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.496][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.498][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:00.499][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:00.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.501][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.503][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:00.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:00.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.508][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:00.510][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:00.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.512][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:00.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:00.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.519][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:00.521][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:00.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.523][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.525][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:00.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:00.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.530][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:00.531][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:00.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.534][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.535][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:00.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:00.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.540][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:00.542][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:00.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.544][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.546][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:00.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:00.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:00.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:00.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:00.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:00.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:00.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:00.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:00.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:00.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:00.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:00.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:00.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:00.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:00.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:00.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:00.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:00.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:00.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:00.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:00.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:00.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:00.603][self$createEntryFromContent] Accession numbers: 8021.
biodb.TRACE[2024-07-06 16:04:00.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:00.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:00.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:00.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:00.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:00.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:00.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:00.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:00.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:00.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:00.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:00.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:00.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:00.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:00.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:00.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:00.633][private$loadEntries] Creating entries from ids [1]: "30382".
biodb.DEBUG[2024-07-06 16:04:00.635][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:00.637][cch$loadFileContent] Trying to load 1 files from cache: [1]: "30382".
biodb.TRACE[2024-07-06 16:04:00.638][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:00.640][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:00.641][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:00.642][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:00.643][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:00.645][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:00.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:00.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:00.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:00.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:00.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:00.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:00.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:00.662][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382".
biodb.DEBUG[2024-07-06 16:04:00.665][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:00.667][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:00.669][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382".
biodb.TRACE[2024-07-06 16:04:01.037][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382).
biodb.DEBUG[2024-07-06 16:04:01.412][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:01.414][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/762ae1b4688e0a5ef1a1419b25f545f9.content"
biodb.TRACE[2024-07-06 16:04:01.419][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/762ae1b4688e0a5ef1a1419b25f545f9.request"
biodb.TRACE[2024-07-06 16:04:01.422][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/30382.xml"
biodb.DEBUG[2024-07-06 16:04:01.424][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:01.425][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:01.426][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:01.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:01.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:01.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:01.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:01.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:01.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:01.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:01.443][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:01.444][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:01.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.447][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:01.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:01.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.453][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:01.454][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:01.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.457][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.458][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:01.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:01.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.463][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:01.465][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:01.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.467][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.468][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:01.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:01.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.474][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:01.475][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:01.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.477][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:01.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:01.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.484][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:01.485][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:01.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.487][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.489][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:01.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:01.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.494][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:01.495][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:01.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.498][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.499][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:01.500][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:01.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.503][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.504][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:01.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:01.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.509][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:01.511][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:01.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.513][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:01.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:01.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.520][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:01.521][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:01.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.523][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.525][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:01.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:01.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.530][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:01.532][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:01.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.534][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.535][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:01.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:01.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.541][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:01.542][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:01.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.544][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.546][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:01.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:01.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:01.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:01.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:01.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:01.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:01.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:01.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:01.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:01.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:01.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:01.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:01.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:01.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:01.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:01.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:01.601][self$createEntryFromContent] Accession numbers: 30382.
biodb.TRACE[2024-07-06 16:04:01.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:01.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:01.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:01.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:01.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:01.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:01.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:01.617][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:01.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:01.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:01.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:01.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:01.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:01.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:01.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:01.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.642][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:01.643][private$selectFields]
biodb.TRACE[2024-07-06 16:04:01.645][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:01.646][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:01.647][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:01.648][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.650][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.652][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.653][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.663][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.666][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.667][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:01.668][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:01.669][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.671][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.673][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.674][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:01.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.690][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-07-06 16:04:01.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:01.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:01.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:01.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:01.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:01.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:01.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:01.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.715][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:01.716][private$selectFields]
biodb.TRACE[2024-07-06 16:04:01.717][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:01.718][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:01.720][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:01.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.724][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.726][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.727][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.729][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.731][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:01.732][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:01.733][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.737][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.738][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:01.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.755][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [8021].
biodb.DEBUG[2024-07-06 16:04:01.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:01.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:01.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:01.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:01.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:01.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:01.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:01.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.779][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:01.781][private$selectFields]
biodb.TRACE[2024-07-06 16:04:01.782][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:01.783][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:01.784][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:01.785][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.787][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.789][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.790][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.791][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.794][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.795][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:01.796][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:01.797][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.801][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.802][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:01.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:01.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:01.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:01.818][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [30382].
biodb.DEBUG[2024-07-06 16:04:01.820][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:01.821][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:01.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:01.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:01.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:01.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:01.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:01.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:01.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:01.838][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:01.843][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:01.844][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:01.846][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:04:02.232][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:04:02.605][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:02.608][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.content"
biodb.TRACE[2024-07-06 16:04:02.613][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.request"
biodb.DEBUG[2024-07-06 16:04:02.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:02.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:02.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:02.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:02.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:02.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:02.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:02.630][private$loadEntries] Creating entries from ids [1]: "9710".
biodb.DEBUG[2024-07-06 16:04:02.632][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:02.634][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9710".
biodb.TRACE[2024-07-06 16:04:02.635][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:02.637][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:02.638][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:02.639][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:02.640][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:02.642][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:02.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:02.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:02.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:02.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:02.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:02.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:02.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:02.658][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710".
biodb.DEBUG[2024-07-06 16:04:02.662][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:02.663][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:02.665][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710".
biodb.TRACE[2024-07-06 16:04:03.037][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710).
biodb.DEBUG[2024-07-06 16:04:03.407][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:03.410][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b7c920ea46a15bb7175f778579142c91.content"
biodb.TRACE[2024-07-06 16:04:03.414][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b7c920ea46a15bb7175f778579142c91.request"
biodb.TRACE[2024-07-06 16:04:03.417][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9710.xml"
biodb.DEBUG[2024-07-06 16:04:03.419][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:03.421][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:03.422][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:03.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:03.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:03.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:03.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:03.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:03.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:03.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:03.438][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:03.440][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:03.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.442][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:03.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:03.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.448][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:03.450][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:03.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.452][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.454][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:03.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:03.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.459][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:03.460][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:03.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.463][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.464][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:03.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:03.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.469][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:03.471][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:03.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.473][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:03.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:03.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.480][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:03.481][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:03.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.484][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.485][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:03.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:03.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.490][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:03.492][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:03.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.494][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.495][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:03.497][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:03.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.499][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.501][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:03.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:03.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.506][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:03.507][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:03.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.510][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:03.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:03.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.516][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:03.517][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:03.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.519][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.521][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:03.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:03.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.526][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:03.527][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:03.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.530][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.531][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:03.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:03.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.536][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:03.537][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:03.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.540][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.541][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:03.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:03.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:03.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:03.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:03.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:03.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:03.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:03.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:03.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:03.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:03.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:03.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:03.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:03.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:03.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:03.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:03.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:03.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:03.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:03.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:03.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:03.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:03.606][self$createEntryFromContent] Accession numbers: 9710.
biodb.TRACE[2024-07-06 16:04:03.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:03.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:03.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:03.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:03.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:03.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:03.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:03.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:03.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:03.621][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:03.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:03.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:03.629][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:03.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:03.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:03.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:03.634][private$loadEntries] Creating entries from ids [1]: "65530".
biodb.DEBUG[2024-07-06 16:04:03.635][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:03.637][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65530".
biodb.TRACE[2024-07-06 16:04:03.639][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:03.640][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:03.641][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:03.642][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:03.644][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:03.645][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:03.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:03.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:03.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:03.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:03.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:03.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:03.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:03.661][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530".
biodb.DEBUG[2024-07-06 16:04:03.665][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:03.666][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:03.668][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530".
biodb.TRACE[2024-07-06 16:04:04.043][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530).
biodb.DEBUG[2024-07-06 16:04:04.413][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:04.415][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bb7ff6c0bdfa280406af23f96ee06f80.content"
biodb.TRACE[2024-07-06 16:04:04.420][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bb7ff6c0bdfa280406af23f96ee06f80.request"
biodb.TRACE[2024-07-06 16:04:04.423][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65530.xml"
biodb.DEBUG[2024-07-06 16:04:04.425][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:04.427][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:04.428][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:04.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:04.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:04.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:04.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:04.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:04.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:04.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:04.444][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:04.446][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:04.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.448][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:04.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:04.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.455][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:04.456][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:04.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.458][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.460][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:04.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:04.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.465][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:04.466][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:04.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.469][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.470][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:04.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:04.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.475][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:04.477][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:04.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.479][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.481][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:04.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:04.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.486][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:04.487][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:04.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.489][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.491][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:04.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:04.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.496][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:04.497][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:04.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.500][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.501][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:04.503][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:04.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.505][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.506][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:04.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:04.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.511][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:04.513][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:04.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.515][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:04.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:04.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.522][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:04.523][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:04.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.525][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.527][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:04.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:04.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.532][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:04.534][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:04.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.536][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.537][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:04.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:04.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.542][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:04.544][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:04.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.546][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.548][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:04.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:04.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:04.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:04.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:04.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:04.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:04.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:04.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:04.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:04.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:04.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:04.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:04.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:04.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:04.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:04.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:04.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:04.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:04.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:04.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:04.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:04.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:04.602][self$createEntryFromContent] Accession numbers: 65530.
biodb.TRACE[2024-07-06 16:04:04.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:04.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:04.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:04.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:04.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:04.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:04.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:04.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:04.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:04.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:04.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:04.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:04.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:04.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:04.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:04.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:04.632][private$loadEntries] Creating entries from ids [1]: "72338".
biodb.DEBUG[2024-07-06 16:04:04.633][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:04.635][cch$loadFileContent] Trying to load 1 files from cache: [1]: "72338".
biodb.TRACE[2024-07-06 16:04:04.637][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:04.638][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:04.639][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:04.641][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:04.642][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:04.643][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:04.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:04.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:04.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:04.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:04.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:04.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:04.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:04.659][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338".
biodb.DEBUG[2024-07-06 16:04:04.663][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:04.664][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:04.666][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338".
biodb.TRACE[2024-07-06 16:04:05.038][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338).
biodb.DEBUG[2024-07-06 16:04:05.412][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:05.415][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e64dda61e0a44a21c5b0eb3609a4a7b.content"
biodb.TRACE[2024-07-06 16:04:05.419][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e64dda61e0a44a21c5b0eb3609a4a7b.request"
biodb.TRACE[2024-07-06 16:04:05.423][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/72338.xml"
biodb.DEBUG[2024-07-06 16:04:05.425][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:05.427][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:05.428][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:05.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:05.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:05.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:05.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:05.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:05.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:05.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:05.445][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:05.446][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:05.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.449][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:05.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:05.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.455][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:05.456][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:05.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.459][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.460][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:05.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:05.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.465][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:05.467][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:05.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.469][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.470][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:05.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:05.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.475][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:05.477][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:05.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.479][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:05.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:05.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.485][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:05.487][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:05.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.500][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:05.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:05.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.507][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:05.508][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:05.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.510][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.512][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:05.513][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:05.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.515][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.517][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:05.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:05.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.522][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:05.523][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:05.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.525][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:05.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:05.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.532][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:05.533][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:05.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.535][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.537][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:05.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:05.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.542][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:05.543][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:05.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.545][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.547][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:05.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:05.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.552][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:05.553][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:05.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.555][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.557][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:05.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:05.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:05.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:05.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:05.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:05.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:05.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:05.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:05.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:05.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:05.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:05.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:05.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:05.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:05.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:05.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:05.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:05.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:05.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:05.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:05.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:05.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:05.611][self$createEntryFromContent] Accession numbers: 72338.
biodb.TRACE[2024-07-06 16:04:05.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:05.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:05.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:05.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:05.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:05.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:05.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:05.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:05.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:05.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:05.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:05.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:05.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:05.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:05.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:05.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:05.643][private$loadEntries] Creating entries from ids [1]: "77926".
biodb.DEBUG[2024-07-06 16:04:05.646][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:05.650][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77926".
biodb.TRACE[2024-07-06 16:04:05.652][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:05.654][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:05.656][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:05.657][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:05.658][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:05.659][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:05.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:05.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:05.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:05.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:05.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:05.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:05.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:05.676][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926".
biodb.DEBUG[2024-07-06 16:04:05.680][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:05.681][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:05.683][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926".
biodb.TRACE[2024-07-06 16:04:06.055][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926).
biodb.DEBUG[2024-07-06 16:04:06.518][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:06.521][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9ad4fcb4fcba98dcbec5ee6292352f7b.content"
biodb.TRACE[2024-07-06 16:04:06.525][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9ad4fcb4fcba98dcbec5ee6292352f7b.request"
biodb.TRACE[2024-07-06 16:04:06.529][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77926.xml"
biodb.DEBUG[2024-07-06 16:04:06.531][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:06.532][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:06.534][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:06.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:06.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:06.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:06.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:06.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:06.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:06.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:06.550][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:06.551][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:06.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.554][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:06.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:06.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.560][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:06.561][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:06.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.564][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.565][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:06.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:06.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.570][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:06.572][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:06.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.574][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.575][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:06.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:06.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.581][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:06.582][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:06.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.584][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.586][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:06.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:06.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.591][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:06.592][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:06.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.595][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.596][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:06.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:06.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.601][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:06.603][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:06.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.605][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.606][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:06.608][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:06.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.610][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.612][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:06.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:06.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.617][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:06.618][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:06.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.620][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:06.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:06.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.627][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:06.628][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:06.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.630][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.632][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:06.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:06.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.637][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:06.638][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:06.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.641][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.642][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:06.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:06.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.647][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:06.649][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:06.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.651][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.653][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:06.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:06.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:06.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:06.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:06.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:06.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:06.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:06.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:06.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:06.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:06.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:06.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:06.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:06.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:06.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:06.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:06.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:06.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:06.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:06.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:06.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:06.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:06.707][self$createEntryFromContent] Accession numbers: 77926.
biodb.TRACE[2024-07-06 16:04:06.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:06.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:06.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:06.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:06.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:06.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:06.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:06.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:06.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:06.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:06.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:06.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:06.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:06.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:06.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:06.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:06.736][private$loadEntries] Creating entries from ids [1]: "82369".
biodb.DEBUG[2024-07-06 16:04:06.738][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:06.740][cch$loadFileContent] Trying to load 1 files from cache: [1]: "82369".
biodb.TRACE[2024-07-06 16:04:06.741][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:06.742][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:06.744][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:06.745][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:06.746][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:06.747][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:06.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:06.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:06.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:06.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:06.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:06.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:06.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:06.772][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369".
biodb.DEBUG[2024-07-06 16:04:06.776][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:06.777][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:06.779][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369".
biodb.TRACE[2024-07-06 16:04:07.153][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369).
biodb.DEBUG[2024-07-06 16:04:07.526][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:07.529][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/141011223a89b45316c20d1fd91b47fd.content"
biodb.TRACE[2024-07-06 16:04:07.533][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/141011223a89b45316c20d1fd91b47fd.request"
biodb.TRACE[2024-07-06 16:04:07.536][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/82369.xml"
biodb.DEBUG[2024-07-06 16:04:07.538][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:07.540][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:07.541][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:07.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:07.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:07.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:07.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:07.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:07.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:07.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:07.558][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:07.560][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:07.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.562][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:07.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:07.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.569][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:07.570][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:07.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.573][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.574][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:07.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:07.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.579][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:07.580][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:07.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.583][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.584][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:07.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:07.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.590][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:07.591][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:07.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.593][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:07.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:07.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.600][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:07.601][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:07.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.604][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.605][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:07.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:07.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.610][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:07.612][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:07.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.614][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.616][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:07.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:07.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.621][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:07.622][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:07.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.625][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.626][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:07.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:07.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.631][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:07.632][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:07.633][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.635][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:07.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:07.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.641][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:07.642][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:07.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.645][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.647][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:07.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:07.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.652][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:07.653][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:07.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.655][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.657][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:07.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:07.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.662][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:07.663][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:07.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.665][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.667][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:07.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:07.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:07.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:07.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:07.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:07.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:07.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:07.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:07.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:07.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:07.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:07.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:07.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:07.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:07.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:07.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:07.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:07.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:07.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:07.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:07.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:07.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:07.721][self$createEntryFromContent] Accession numbers: 82369.
biodb.TRACE[2024-07-06 16:04:07.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:07.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:07.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:07.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:07.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:07.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:07.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:07.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:07.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:07.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:07.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:07.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:07.745][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:07.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:07.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:07.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:07.750][private$loadEntries] Creating entries from ids [1]: "90204".
biodb.DEBUG[2024-07-06 16:04:07.751][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:07.753][cch$loadFileContent] Trying to load 1 files from cache: [1]: "90204".
biodb.TRACE[2024-07-06 16:04:07.755][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:07.756][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:07.758][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:07.759][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:07.760][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:07.761][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:07.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:07.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:07.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:07.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:07.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:07.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:07.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:07.778][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204".
biodb.DEBUG[2024-07-06 16:04:07.781][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:07.783][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:07.785][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204".
biodb.TRACE[2024-07-06 16:04:08.154][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204).
biodb.DEBUG[2024-07-06 16:04:08.525][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:08.527][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bd50d349ae7e6e2bbccffc7e4e5f18de.content"
biodb.TRACE[2024-07-06 16:04:08.532][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bd50d349ae7e6e2bbccffc7e4e5f18de.request"
biodb.TRACE[2024-07-06 16:04:08.535][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/90204.xml"
biodb.DEBUG[2024-07-06 16:04:08.537][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:08.539][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:08.540][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:08.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:08.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:08.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:08.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:08.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:08.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:08.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:08.557][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:08.558][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:08.560][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.561][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:08.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:08.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.567][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:08.569][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:08.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.571][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.573][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:08.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:08.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.578][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:08.579][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:08.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.582][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.583][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:08.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:08.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.589][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:08.590][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:08.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.592][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:08.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:08.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.599][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:08.600][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:08.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.602][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:08.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:08.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.609][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:08.610][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:08.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.613][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.614][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:08.616][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:08.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.618][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.619][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:08.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:08.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.625][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:08.626][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:08.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.628][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:08.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:08.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.635][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:08.636][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:08.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.638][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.640][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:08.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:08.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.645][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:08.647][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:08.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.649][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.651][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:08.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:08.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.656][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:08.657][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:08.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.659][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.661][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:08.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:08.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:08.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:08.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:08.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:08.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:08.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:08.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:08.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:08.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:08.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:08.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:08.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:08.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:08.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:08.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:08.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:08.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:08.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:08.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:08.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:08.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:08.728][self$createEntryFromContent] Accession numbers: 90204.
biodb.TRACE[2024-07-06 16:04:08.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:08.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:08.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:08.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:08.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:08.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:08.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:08.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:08.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:08.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:08.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:08.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:08.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:08.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:08.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:08.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:08.757][private$loadEntries] Creating entries from ids [1]: "132793".
biodb.DEBUG[2024-07-06 16:04:08.758][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:08.760][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132793".
biodb.TRACE[2024-07-06 16:04:08.762][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:08.763][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:08.764][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:08.765][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:08.767][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:08.768][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:08.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:08.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:08.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:08.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:08.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:08.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:08.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:08.784][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793".
biodb.DEBUG[2024-07-06 16:04:08.788][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:08.789][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:08.791][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793".
biodb.TRACE[2024-07-06 16:04:09.161][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793).
biodb.DEBUG[2024-07-06 16:04:09.543][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:09.545][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a797bec3bbec3ca7a5b4b96140b735a3.content"
biodb.TRACE[2024-07-06 16:04:09.550][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a797bec3bbec3ca7a5b4b96140b735a3.request"
biodb.TRACE[2024-07-06 16:04:09.553][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132793.xml"
biodb.DEBUG[2024-07-06 16:04:09.555][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:09.557][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:09.558][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:09.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:09.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:09.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:09.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:09.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:09.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:09.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:09.576][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:09.578][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:09.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.580][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:09.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:09.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.587][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:09.588][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:09.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.591][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.592][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:09.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:09.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.598][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:09.599][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:09.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.601][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:09.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:09.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.608][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:09.609][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:09.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.612][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.613][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:09.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:09.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.618][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:09.620][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:09.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:09.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:09.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.629][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:09.630][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:09.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.633][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.634][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:09.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:09.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.639][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:09.641][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:09.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.643][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.645][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:09.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:09.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.650][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:09.651][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:09.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.654][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:09.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:09.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.661][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:09.662][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:09.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.665][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:09.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:09.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.672][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:09.674][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:09.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.677][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.678][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:09.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:09.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.684][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:09.685][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:09.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.688][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.689][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:09.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:09.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:09.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:09.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:09.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:09.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:09.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:09.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:09.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:09.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:09.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:09.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:09.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:09.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:09.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:09.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:09.747][self$createEntryFromContent] Accession numbers: 132793.
biodb.TRACE[2024-07-06 16:04:09.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:09.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:09.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:09.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:09.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:09.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:09.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:09.763][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:09.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:09.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:09.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:09.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:09.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:09.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:09.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:09.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.788][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:09.790][private$selectFields]
biodb.TRACE[2024-07-06 16:04:09.791][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:09.792][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:09.793][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:09.794][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.796][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.798][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.799][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.801][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.803][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.804][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:09.806][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:09.807][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.808][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.810][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.812][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:09.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.828][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65530].
biodb.DEBUG[2024-07-06 16:04:09.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:09.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:09.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:09.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:09.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:09.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:09.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:09.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.860][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:09.862][private$selectFields]
biodb.TRACE[2024-07-06 16:04:09.863][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:09.864][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:09.865][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:09.866][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.868][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.870][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.871][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.873][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.875][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:09.877][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:09.878][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.880][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.882][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.883][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:09.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.900][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [90204].
biodb.DEBUG[2024-07-06 16:04:09.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:09.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:09.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:09.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:09.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:09.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:09.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:09.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.924][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:09.925][private$selectFields]
biodb.TRACE[2024-07-06 16:04:09.926][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:09.927][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:09.928][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:09.929][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.931][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.933][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.934][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.935][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.938][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.939][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:09.940][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:09.941][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.945][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.946][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:09.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:09.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:09.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:09.962][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132793].
biodb.DEBUG[2024-07-06 16:04:09.964][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:09.965][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:09.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:09.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:09.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:09.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:09.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:09.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:09.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:09.982][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:09.986][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:09.987][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:09.990][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:04:10.369][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:04:10.740][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:10.742][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.content"
biodb.TRACE[2024-07-06 16:04:10.747][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.request"
biodb.DEBUG[2024-07-06 16:04:10.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:10.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:10.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:10.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:10.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:10.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:10.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:10.764][private$loadEntries] Creating entries from ids [1]: "131378".
biodb.DEBUG[2024-07-06 16:04:10.765][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:10.767][cch$loadFileContent] Trying to load 1 files from cache: [1]: "131378".
biodb.TRACE[2024-07-06 16:04:10.768][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:10.770][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:10.771][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:10.772][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:10.774][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:10.775][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:10.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:10.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:10.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:10.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:10.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:10.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:10.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:10.791][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378".
biodb.DEBUG[2024-07-06 16:04:10.795][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:10.796][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:10.798][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378".
biodb.TRACE[2024-07-06 16:04:11.172][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378).
biodb.DEBUG[2024-07-06 16:04:11.546][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:11.548][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5b759b1dd2dc96585e60782e41aa0772.content"
biodb.TRACE[2024-07-06 16:04:11.553][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5b759b1dd2dc96585e60782e41aa0772.request"
biodb.TRACE[2024-07-06 16:04:11.556][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/131378.xml"
biodb.DEBUG[2024-07-06 16:04:11.558][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:11.560][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:11.561][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:11.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:11.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:11.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:11.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:11.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:11.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:11.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:11.578][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:11.579][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:11.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.582][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:11.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:11.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.588][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:11.589][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:11.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.592][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.593][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:11.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:11.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.598][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:11.600][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:11.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.602][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:11.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:11.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.608][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:11.610][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:11.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.612][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.613][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:11.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:11.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.618][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:11.620][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:11.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:11.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:11.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.628][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:11.630][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:11.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.632][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.633][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:11.635][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:11.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.637][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.639][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:11.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:11.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.644][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:11.645][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:11.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.647][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:11.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:11.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.654][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:11.655][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:11.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.657][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.659][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:11.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:11.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.664][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:11.666][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:11.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.668][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.669][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:11.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:11.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.675][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:11.676][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:11.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.678][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.680][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:11.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:11.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:11.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:11.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:11.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:11.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:11.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:11.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:11.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:11.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:11.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:11.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:11.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:11.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:11.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:11.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:11.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:11.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:11.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:11.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:11.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:11.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:11.737][self$createEntryFromContent] Accession numbers: 131378.
biodb.TRACE[2024-07-06 16:04:11.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:11.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:11.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:11.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:11.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:11.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:11.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:11.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:11.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:11.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:11.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:11.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:11.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:11.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:11.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:11.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:11.786][private$loadEntries] Creating entries from ids [1]: "214202".
biodb.DEBUG[2024-07-06 16:04:11.787][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:11.790][cch$loadFileContent] Trying to load 1 files from cache: [1]: "214202".
biodb.TRACE[2024-07-06 16:04:11.791][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:11.793][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:11.794][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:11.795][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:11.796][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:11.798][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:11.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:11.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:11.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:11.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:11.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:11.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:11.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:11.815][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202".
biodb.DEBUG[2024-07-06 16:04:11.818][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:11.819][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:11.821][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202".
biodb.TRACE[2024-07-06 16:04:12.189][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202).
biodb.DEBUG[2024-07-06 16:04:12.562][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:12.564][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf9a3fb7c59af59e06fd510ceb170574.content"
biodb.TRACE[2024-07-06 16:04:12.569][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf9a3fb7c59af59e06fd510ceb170574.request"
biodb.TRACE[2024-07-06 16:04:12.572][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/214202.xml"
biodb.DEBUG[2024-07-06 16:04:12.574][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:12.575][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:12.577][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:12.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:12.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:12.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:12.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:12.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:12.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:12.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:12.593][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:12.595][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:12.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.597][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:12.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:12.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.603][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:12.605][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:12.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.607][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.609][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:12.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:12.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.614][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:12.615][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:12.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.617][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.619][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:12.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:12.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.625][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:12.626][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:12.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.628][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:12.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:12.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.635][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:12.636][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:12.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.639][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:12.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:12.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.645][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:12.647][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:12.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.649][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.651][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:12.652][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:12.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.654][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.656][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:12.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:12.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.661][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:12.662][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:12.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.665][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:12.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:12.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.672][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:12.673][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:12.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.675][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.677][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:12.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:12.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.682][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:12.684][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:12.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.686][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.688][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:12.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:12.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.693][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:12.695][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:12.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.697][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.699][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:12.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:12.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:12.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:12.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:12.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:12.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:12.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:12.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:12.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:12.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:12.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:12.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:12.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:12.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:12.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:12.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:12.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:12.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:12.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:12.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:12.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:12.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:12.756][self$createEntryFromContent] Accession numbers: 214202.
biodb.TRACE[2024-07-06 16:04:12.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:12.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:12.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:12.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:12.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:12.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:12.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:12.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:12.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:12.774][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:12.778][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:12.780][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:12.782][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:04:13.155][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:04:13.527][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:13.530][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.content"
biodb.TRACE[2024-07-06 16:04:13.534][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.request"
biodb.DEBUG[2024-07-06 16:04:13.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:13.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:13.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:13.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:13.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:13.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:13.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:13.551][private$loadEntries] Creating entries from ids [1]: "51836".
biodb.DEBUG[2024-07-06 16:04:13.552][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:13.554][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51836".
biodb.TRACE[2024-07-06 16:04:13.555][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:13.557][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:13.558][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:13.559][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:13.561][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:13.562][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:13.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:13.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:13.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:13.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:13.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:13.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:13.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:13.578][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836".
biodb.DEBUG[2024-07-06 16:04:13.581][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:13.582][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:13.584][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836".
biodb.TRACE[2024-07-06 16:04:13.959][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836).
biodb.DEBUG[2024-07-06 16:04:14.332][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:14.335][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1fe2079ad59bca4bc82b2cd14ed8e8a1.content"
biodb.TRACE[2024-07-06 16:04:14.339][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1fe2079ad59bca4bc82b2cd14ed8e8a1.request"
biodb.TRACE[2024-07-06 16:04:14.342][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51836.xml"
biodb.DEBUG[2024-07-06 16:04:14.344][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:14.346][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:14.347][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:14.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:14.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:14.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:14.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:14.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:14.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:14.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:14.364][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:14.366][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:14.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.368][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:14.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:14.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.375][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:14.376][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:14.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.378][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.380][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:14.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:14.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.385][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:14.386][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:14.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.389][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.390][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:14.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:14.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.396][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:14.397][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:14.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.399][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:14.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:14.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.406][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:14.407][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:14.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.410][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:14.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:14.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.416][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:14.418][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:14.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.420][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.422][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:14.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:14.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.427][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:14.428][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:14.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.431][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.445][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:14.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:14.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.451][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:14.452][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:14.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.455][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:14.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:14.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.461][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:14.463][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:14.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.465][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.467][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:14.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:14.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.472][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:14.473][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:14.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.475][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.477][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:14.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:14.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.482][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:14.483][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:14.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.486][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.487][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:14.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:14.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:14.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:14.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:14.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:14.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:14.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:14.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:14.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:14.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:14.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:14.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:14.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:14.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:14.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:14.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:14.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:14.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:14.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:14.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:14.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:14.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:14.542][self$createEntryFromContent] Accession numbers: 51836.
biodb.TRACE[2024-07-06 16:04:14.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:14.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:14.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:14.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:14.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:14.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:14.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:14.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:14.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:14.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:14.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:14.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:14.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:14.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:14.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:14.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:14.572][private$loadEntries] Creating entries from ids [1]: "51837".
biodb.DEBUG[2024-07-06 16:04:14.573][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:14.575][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51837".
biodb.TRACE[2024-07-06 16:04:14.577][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:14.578][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:14.580][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:14.581][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:14.582][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:14.584][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:14.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:14.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:14.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:14.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:14.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:14.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:14.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:14.601][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837".
biodb.DEBUG[2024-07-06 16:04:14.605][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:14.606][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:14.608][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837".
biodb.TRACE[2024-07-06 16:04:14.983][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837).
biodb.DEBUG[2024-07-06 16:04:15.355][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:15.358][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1588f004fb5de8667ae1af7433b2932e.content"
biodb.TRACE[2024-07-06 16:04:15.363][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1588f004fb5de8667ae1af7433b2932e.request"
biodb.TRACE[2024-07-06 16:04:15.366][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51837.xml"
biodb.DEBUG[2024-07-06 16:04:15.368][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:15.370][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:15.372][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:15.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:15.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:15.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:15.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:15.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:15.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:15.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:15.388][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:15.390][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:15.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.392][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:15.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:15.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.399][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:15.400][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:15.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.402][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.404][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:15.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:15.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.409][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:15.410][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:15.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.413][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.414][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:15.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:15.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.419][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:15.421][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:15.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.423][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.425][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:15.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:15.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.430][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:15.431][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:15.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.434][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:15.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:15.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.440][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:15.442][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:15.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.445][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.447][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:15.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:15.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.455][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:15.456][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:15.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.459][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.461][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:15.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:15.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.467][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:15.468][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:15.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.471][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:15.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:15.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.477][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:15.478][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:15.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.481][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.483][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:15.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:15.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.488][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:15.489][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:15.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.491][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.493][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:15.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:15.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.498][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:15.499][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:15.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.501][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.503][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:15.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:15.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:15.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:15.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:15.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:15.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:15.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:15.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:15.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:15.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:15.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:15.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:15.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:15.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:15.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:15.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:15.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:15.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:15.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:15.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:15.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:15.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:15.557][self$createEntryFromContent] Accession numbers: 51837.
biodb.TRACE[2024-07-06 16:04:15.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:15.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:15.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:15.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:15.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:15.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:15.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:15.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:15.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:15.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:15.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:15.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:15.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:15.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:15.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:15.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:15.586][private$loadEntries] Creating entries from ids [1]: "132205".
biodb.DEBUG[2024-07-06 16:04:15.587][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:15.589][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132205".
biodb.TRACE[2024-07-06 16:04:15.591][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:15.592][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:15.593][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:15.595][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:15.596][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:15.597][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:15.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:15.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:15.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:15.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:15.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:15.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:15.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:15.619][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205".
biodb.DEBUG[2024-07-06 16:04:15.625][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:15.627][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:15.628][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205".
biodb.TRACE[2024-07-06 16:04:16.006][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205).
biodb.DEBUG[2024-07-06 16:04:16.379][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:16.381][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bfa2ac1d845d7db5b781e9a39528bb3.content"
biodb.TRACE[2024-07-06 16:04:16.386][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bfa2ac1d845d7db5b781e9a39528bb3.request"
biodb.TRACE[2024-07-06 16:04:16.389][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132205.xml"
biodb.DEBUG[2024-07-06 16:04:16.391][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:16.392][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:16.394][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:16.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:16.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:16.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:16.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:16.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:16.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:16.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:16.410][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:16.411][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:16.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.414][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:16.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:16.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.420][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:16.421][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:16.423][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.424][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.425][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:16.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:16.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.430][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:16.431][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:16.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.434][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.435][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:16.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:16.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.440][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:16.441][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:16.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.444][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:16.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:16.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.450][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:16.451][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:16.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.454][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:16.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:16.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.460][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:16.461][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:16.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.464][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.465][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:16.466][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.469][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.470][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:16.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.476][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:16.477][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:16.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.479][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:16.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:16.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.486][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:16.487][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:16.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.490][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.491][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:16.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:16.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.496][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:16.498][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:16.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.500][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.502][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:16.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:16.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.507][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:16.508][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:16.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.510][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.512][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:16.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:16.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:16.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:16.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:16.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:16.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:16.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:16.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:16.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:16.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:16.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:16.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:16.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:16.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:16.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:16.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:16.566][self$createEntryFromContent] Accession numbers: 132205.
biodb.TRACE[2024-07-06 16:04:16.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:16.582][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:16.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:16.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:16.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:16.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:16.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:16.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:16.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:16.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.608][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.609][private$selectFields]
biodb.TRACE[2024-07-06 16:04:16.610][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:16.611][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:16.613][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.614][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.615][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.618][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.619][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.620][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.624][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.625][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.626][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.627][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.630][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.631][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:16.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.648][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51836].
biodb.DEBUG[2024-07-06 16:04:16.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:16.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:16.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:16.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:16.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:16.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:16.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:16.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.673][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.674][private$selectFields]
biodb.TRACE[2024-07-06 16:04:16.675][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:16.676][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:16.677][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.679][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.680][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.682][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.684][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.688][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.689][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.690][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.695][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.697][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:16.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.714][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51837].
biodb.DEBUG[2024-07-06 16:04:16.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:16.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:16.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:16.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:16.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:16.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:16.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:16.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.739][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.740][private$selectFields]
biodb.TRACE[2024-07-06 16:04:16.742][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:16.743][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:16.744][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.745][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.747][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.749][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.750][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.752][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.754][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.756][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.759][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.761][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.762][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:16.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.779][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132205].
biodb.DEBUG[2024-07-06 16:04:16.780][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:16.782][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:16.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:16.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:16.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:16.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:16.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:16.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:16.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:16.830][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:16.834][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:16.836][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-06 16:04:16.837][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:16.839][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-06 16:04:16.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:16.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:16.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:16.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:16.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:16.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:16.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:16.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:16.871][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:16.875][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:16.876][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-06 16:04:16.878][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:16.880][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-06 16:04:16.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:16.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:16.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:16.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:16.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:16.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:16.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:16.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:16.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:16.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:16.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:16.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:16.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:16.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:16.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:16.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:16.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:16.938][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:16.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:16.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:16.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:16.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:16.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:16.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:16.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:16.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.963][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.965][private$selectFields]
biodb.TRACE[2024-07-06 16:04:16.966][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:16.967][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:16.968][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.969][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.971][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.973][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.974][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.976][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.978][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.979][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.980][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:16.981][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.983][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.985][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.986][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:16.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:16.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:16.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:16.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.003][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-06 16:04:17.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.027][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.028][private$selectFields]
biodb.TRACE[2024-07-06 16:04:17.029][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:17.030][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:17.031][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.032][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.034][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.036][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.037][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.039][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.041][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.043][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.044][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.046][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.048][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.049][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:17.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.065][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:04:17.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.089][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.090][private$selectFields]
biodb.TRACE[2024-07-06 16:04:17.092][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:17.093][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:17.094][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.095][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.096][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.099][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.100][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.101][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.104][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.105][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.106][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.107][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.109][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.111][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.112][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:17.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.128][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-06 16:04:17.130][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:17.131][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:17.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:17.148][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:17.153][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:17.154][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-07-06 16:04:17.156][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:17.158][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-07-06 16:04:17.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.224][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:17.228][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:17.230][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-07-06 16:04:17.231][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:17.233][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-07-06 16:04:17.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.321][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:17.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.347][private$selectFields]
biodb.TRACE[2024-07-06 16:04:17.348][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:17.350][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:17.351][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.352][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.353][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.356][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.357][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.358][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.361][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.362][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.363][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.364][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.365][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.368][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.369][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:17.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.385][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:04:17.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.409][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.411][private$selectFields]
biodb.TRACE[2024-07-06 16:04:17.412][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:17.413][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:17.414][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.415][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.417][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.419][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.420][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.423][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.424][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.425][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.426][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.427][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.429][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.431][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.432][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:17.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.449][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-07-06 16:04:17.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.473][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.475][private$selectFields]
biodb.TRACE[2024-07-06 16:04:17.476][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:17.477][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:17.478][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.479][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.481][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.483][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.484][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.486][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.488][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.489][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.490][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.495][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.496][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:17.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.512][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-07-06 16:04:17.514][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:17.515][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:17.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:17.532][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:17.536][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:17.537][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-07-06 16:04:17.539][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:17.541][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-07-06 16:04:17.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.688][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.773][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:17.777][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:17.779][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-07-06 16:04:17.780][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:17.782][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-07-06 16:04:17.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:17.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:17.870][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:17.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.895][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.897][private$selectFields]
biodb.TRACE[2024-07-06 16:04:17.898][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:17.899][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:17.900][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.901][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.903][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.905][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.906][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.908][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.910][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.911][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.913][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.918][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.919][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:17.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.935][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-07-06 16:04:17.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:17.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:17.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:17.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:17.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:17.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:17.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:17.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.960][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.962][private$selectFields]
biodb.TRACE[2024-07-06 16:04:17.963][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:17.964][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:17.965][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.966][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.968][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.970][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.972][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.973][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.975][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.977][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.978][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:17.979][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.980][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.983][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.984][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:17.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:17.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:17.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:17.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.001][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-07-06 16:04:18.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:18.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:18.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:18.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:18.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:18.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:18.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:18.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.026][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:18.027][private$selectFields]
biodb.TRACE[2024-07-06 16:04:18.028][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:18.030][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:18.031][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:18.032][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.034][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.036][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.037][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.039][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.041][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:18.044][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:18.045][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.046][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.048][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.050][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:18.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:18.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.073][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-07-06 16:04:18.074][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:18.075][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:18.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:18.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:18.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:18.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:18.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:18.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:18.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:18.117][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:18.122][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:18.123][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:18.126][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:04:18.500][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:04:18.886][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:18.889][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.content"
biodb.TRACE[2024-07-06 16:04:18.894][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.request"
biodb.DEBUG[2024-07-06 16:04:18.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:18.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:18.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:18.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:18.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:18.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:18.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:18.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:18.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:18.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:18.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:18.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:18.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:18.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:18.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:18.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:18.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:18.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:18.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:18.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:18.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:18.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:18.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:18.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:18.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:18.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:18.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:18.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:18.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:18.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:18.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:18.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:18.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:18.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:18.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:18.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:18.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:18.969][private$loadEntries] Creating entries from ids [1]: "28243".
biodb.DEBUG[2024-07-06 16:04:18.970][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:18.972][cch$loadFileContent] Trying to load 1 files from cache: [1]: "28243".
biodb.TRACE[2024-07-06 16:04:18.974][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:18.976][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:18.977][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:18.978][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:18.980][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:18.981][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:18.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:18.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:18.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:18.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:18.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:18.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:18.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:18.998][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243".
biodb.DEBUG[2024-07-06 16:04:19.001][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:19.003][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:19.004][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243".
biodb.TRACE[2024-07-06 16:04:19.374][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243).
biodb.DEBUG[2024-07-06 16:04:19.744][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:19.747][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/177c3a227615d232b537605885883911.content"
biodb.TRACE[2024-07-06 16:04:19.752][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/177c3a227615d232b537605885883911.request"
biodb.TRACE[2024-07-06 16:04:19.755][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/28243.xml"
biodb.DEBUG[2024-07-06 16:04:19.757][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:19.759][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:19.760][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:19.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:19.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:19.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:19.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:19.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:19.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:19.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:19.777][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:19.778][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:19.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.780][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:19.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:19.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.787][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:19.788][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:19.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.790][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.792][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:19.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:19.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.797][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:19.798][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:19.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.801][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.802][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:19.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:19.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.807][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:19.808][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:19.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.811][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:19.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:19.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.817][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:19.819][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:19.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.821][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:19.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:19.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.827][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:19.829][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:19.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.831][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.832][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:19.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:19.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.837][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:19.839][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.841][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.843][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:19.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.848][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:19.849][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:19.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.851][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:19.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:19.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.858][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:19.859][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:19.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.861][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:19.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:19.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.868][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:19.870][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:19.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.872][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.873][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:19.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:19.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.878][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:19.880][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:19.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.882][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.884][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:19.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:19.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:19.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:19.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:19.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:19.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:19.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:19.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:19.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:19.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:19.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:19.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:19.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:19.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:19.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:19.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:19.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:19.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:19.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:19.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:19.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:19.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:19.938][self$createEntryFromContent] Accession numbers: 28243.
biodb.TRACE[2024-07-06 16:04:19.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:19.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:19.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:19.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:19.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:19.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:19.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:19.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:19.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:19.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:19.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:19.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:19.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:19.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:19.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:20.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:20.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:20.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:20.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:20.007][private$loadEntries] Creating entries from ids [1]: "70786".
biodb.DEBUG[2024-07-06 16:04:20.008][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:20.010][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70786".
biodb.TRACE[2024-07-06 16:04:20.012][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:20.013][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:20.014][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:20.016][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:20.017][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:20.018][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:20.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:20.022][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:20.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:20.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:20.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:20.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:20.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:20.034][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786".
biodb.DEBUG[2024-07-06 16:04:20.038][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:20.039][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:20.041][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786".
biodb.TRACE[2024-07-06 16:04:20.410][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786).
biodb.DEBUG[2024-07-06 16:04:20.778][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:20.781][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ea24f2a708fc4a90f6eff28b49d993c4.content"
biodb.TRACE[2024-07-06 16:04:20.786][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ea24f2a708fc4a90f6eff28b49d993c4.request"
biodb.TRACE[2024-07-06 16:04:20.790][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70786.xml"
biodb.DEBUG[2024-07-06 16:04:20.792][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:20.796][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:20.797][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:20.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:20.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:20.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:20.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:20.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:20.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:20.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:20.820][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:20.822][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:20.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.835][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:20.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:20.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.867][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:20.868][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:20.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.874][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.876][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:20.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:20.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.881][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:20.882][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:20.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.885][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.886][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:20.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:20.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.891][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:20.893][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:20.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.895][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.896][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:20.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:20.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.902][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:20.903][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:20.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.905][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.907][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:20.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:20.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.912][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:20.914][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:20.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.916][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.918][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:20.919][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:20.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.921][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.923][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:20.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:20.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.928][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:20.929][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:20.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.932][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:20.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:20.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.939][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:20.940][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:20.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.942][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.944][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:20.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:20.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.949][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:20.951][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:20.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.953][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.955][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:20.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:20.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.960][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:20.961][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:20.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.964][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.965][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:20.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:20.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:20.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:20.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:20.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:20.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:20.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:20.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:20.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:20.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:20.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:20.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:20.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:20.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:20.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:20.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:21.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:21.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:21.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:21.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:21.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:21.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:21.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:21.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:21.021][self$createEntryFromContent] Accession numbers: 70786.
biodb.TRACE[2024-07-06 16:04:21.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:21.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:21.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:21.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:21.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:21.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:21.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:21.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:21.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:21.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:21.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:21.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:21.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:21.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:21.051][private$loadEntries] Creating entries from ids [1]: "78144".
biodb.DEBUG[2024-07-06 16:04:21.053][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:21.055][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78144".
biodb.TRACE[2024-07-06 16:04:21.056][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:21.058][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:21.059][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:21.060][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:21.062][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:21.063][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:21.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:21.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:21.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:21.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:21.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:21.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:21.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:21.080][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144".
biodb.DEBUG[2024-07-06 16:04:21.083][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:21.084][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:21.086][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144".
biodb.TRACE[2024-07-06 16:04:21.455][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144).
biodb.DEBUG[2024-07-06 16:04:21.842][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:21.845][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ede5a640bd42c7611e16282ef185b74.content"
biodb.TRACE[2024-07-06 16:04:21.849][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ede5a640bd42c7611e16282ef185b74.request"
biodb.TRACE[2024-07-06 16:04:21.852][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78144.xml"
biodb.DEBUG[2024-07-06 16:04:21.854][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:21.856][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:21.857][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:21.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:21.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:21.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:21.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:21.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:21.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:21.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:21.873][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:21.875][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:21.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.877][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:21.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:21.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.884][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:21.885][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:21.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.888][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.889][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:21.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:21.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.894][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:21.896][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:21.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.898][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.900][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:21.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:21.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.905][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:21.906][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:21.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.909][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.910][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:21.911][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:21.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.914][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.915][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:21.917][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:21.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.919][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.921][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:21.922][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:21.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.924][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.926][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:21.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:21.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.931][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:21.932][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:21.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.935][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:21.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:21.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.942][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:21.943][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:21.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.957][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.959][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:21.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:21.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.964][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:21.965][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:21.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.967][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.969][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:21.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:21.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.974][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:21.975][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:21.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.978][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.979][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:21.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:21.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:21.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:21.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:21.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:21.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:21.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:21.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:21.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:21.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:22.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:22.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:22.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:22.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:22.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:22.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:22.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:22.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:22.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:22.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:22.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:22.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:22.034][self$createEntryFromContent] Accession numbers: 78144.
biodb.TRACE[2024-07-06 16:04:22.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:22.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:22.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:22.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:22.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:22.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:22.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:22.050][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:22.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:22.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:22.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:22.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:22.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:22.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:22.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:22.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.075][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:22.076][private$selectFields]
biodb.TRACE[2024-07-06 16:04:22.077][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:22.078][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:22.080][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:22.081][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.082][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.085][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.086][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.087][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.090][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.091][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:22.092][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:22.093][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.095][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.097][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.098][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:22.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.115][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:04:22.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:22.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:22.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:22.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:22.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:22.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:22.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:22.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.140][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:22.141][private$selectFields]
biodb.TRACE[2024-07-06 16:04:22.142][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:22.143][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:22.144][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:22.146][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.147][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.149][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.151][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.152][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.154][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.155][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:22.157][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:22.158][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.159][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.162][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.163][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:22.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.179][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [28243].
biodb.DEBUG[2024-07-06 16:04:22.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:22.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:22.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:22.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:22.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:22.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:22.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:22.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.204][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:22.205][private$selectFields]
biodb.TRACE[2024-07-06 16:04:22.206][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:22.208][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:22.209][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:22.210][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.211][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.214][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.215][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.216][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.219][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.220][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:22.221][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:22.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.224][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.226][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.227][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:22.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:22.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:22.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:22.244][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [78144].
biodb.DEBUG[2024-07-06 16:04:22.245][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:22.246][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:22.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:22.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:22.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:22.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:22.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:22.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:22.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:22.264][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:22.268][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:22.269][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:22.272][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:04:22.658][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:04:23.120][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:23.123][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.content"
biodb.TRACE[2024-07-06 16:04:23.128][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.request"
biodb.DEBUG[2024-07-06 16:04:23.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:23.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:23.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:23.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:23.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:23.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:23.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:23.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:23.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:23.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:23.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:23.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:23.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:23.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:23.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:23.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:23.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:23.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:23.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:23.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:23.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:23.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:23.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:23.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:23.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:23.230][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:23.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:23.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:23.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:23.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:23.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:23.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:23.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:23.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.255][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:23.256][private$selectFields]
biodb.TRACE[2024-07-06 16:04:23.257][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:23.258][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:23.260][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:23.261][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.262][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.265][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.266][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.267][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.269][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.271][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:23.272][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:23.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.277][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.278][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:23.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.294][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:04:23.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:23.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:23.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:23.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:23.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:23.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:23.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:23.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.319][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:23.320][private$selectFields]
biodb.TRACE[2024-07-06 16:04:23.321][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:23.322][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:23.323][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:23.325][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.326][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.328][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.330][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.331][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.333][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.335][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:23.336][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:23.337][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.338][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.341][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.342][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:23.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.359][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-07-06 16:04:23.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:23.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:23.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:23.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:23.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:23.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:23.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:23.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.384][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:23.385][private$selectFields]
biodb.TRACE[2024-07-06 16:04:23.386][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:23.388][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:23.389][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:23.390][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.391][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.394][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.395][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.396][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.399][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.400][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:23.401][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:23.402][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.404][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.406][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.407][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:23.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:23.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:23.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:23.424][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-07-06 16:04:23.426][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:23.427][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:23.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:23.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:23.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:23.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:23.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:23.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:23.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:23.445][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:23.449][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:23.450][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:23.453][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:04:23.832][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:04:24.209][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:24.211][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.content"
biodb.TRACE[2024-07-06 16:04:24.216][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.request"
biodb.DEBUG[2024-07-06 16:04:24.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:24.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:24.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:24.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:24.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:24.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:24.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:24.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:24.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:24.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:24.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:24.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:24.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:24.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:24.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:24.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:24.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:24.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:24.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:24.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:24.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:24.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:24.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:24.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:24.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:24.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:24.263][private$loadEntries] Creating entries from ids [1]: "47739".
biodb.DEBUG[2024-07-06 16:04:24.264][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:24.266][cch$loadFileContent] Trying to load 1 files from cache: [1]: "47739".
biodb.TRACE[2024-07-06 16:04:24.268][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:24.269][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:24.270][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:24.271][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:24.273][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:24.274][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:24.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:24.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:24.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:24.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:24.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:24.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:24.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:24.290][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739".
biodb.DEBUG[2024-07-06 16:04:24.294][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:24.295][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:24.296][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739".
biodb.TRACE[2024-07-06 16:04:24.675][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739).
biodb.DEBUG[2024-07-06 16:04:25.044][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:25.046][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0dc9c92acc9df5971b3177a6daad90f3.content"
biodb.TRACE[2024-07-06 16:04:25.050][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0dc9c92acc9df5971b3177a6daad90f3.request"
biodb.TRACE[2024-07-06 16:04:25.053][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/47739.xml"
biodb.DEBUG[2024-07-06 16:04:25.055][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:25.057][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:25.058][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:25.060][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:25.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:25.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:25.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:25.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:25.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:25.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:25.075][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:25.076][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:25.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.078][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:25.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:25.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.085][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:25.086][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:25.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.089][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.090][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:25.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:25.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.095][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:25.097][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:25.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.099][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.101][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:25.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:25.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.106][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:25.107][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:25.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.109][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:25.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:25.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.116][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:25.118][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:25.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.120][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.122][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:25.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:25.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.127][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:25.128][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:25.129][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.130][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.132][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:25.133][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:25.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.147][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.149][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:25.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:25.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:25.156][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:25.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.158][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:25.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:25.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.165][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:25.166][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:25.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.168][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.170][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:25.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:25.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.175][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:25.177][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:25.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.179][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.180][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:25.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:25.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.186][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:25.187][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:25.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.189][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.191][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:25.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:25.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:25.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:25.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:25.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:25.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:25.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:25.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:25.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:25.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:25.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:25.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:25.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:25.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:25.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:25.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:25.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:25.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:25.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:25.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:25.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:25.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:25.245][self$createEntryFromContent] Accession numbers: 47739.
biodb.TRACE[2024-07-06 16:04:25.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:25.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:25.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:25.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:25.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:25.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:25.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:25.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:25.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:25.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:25.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:25.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:25.270][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:25.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:25.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:25.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:25.275][private$loadEntries] Creating entries from ids [1]: "51744".
biodb.DEBUG[2024-07-06 16:04:25.276][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:25.278][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51744".
biodb.TRACE[2024-07-06 16:04:25.280][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:25.281][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:25.283][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:25.284][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:25.285][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:25.286][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:25.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:25.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:25.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:25.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:25.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:25.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:25.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:25.303][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744".
biodb.DEBUG[2024-07-06 16:04:25.307][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:25.308][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:25.310][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744".
biodb.TRACE[2024-07-06 16:04:25.690][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744).
biodb.DEBUG[2024-07-06 16:04:26.102][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:26.105][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34d89a621633962f5a6b9b09f1ef84ed.content"
biodb.TRACE[2024-07-06 16:04:26.110][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34d89a621633962f5a6b9b09f1ef84ed.request"
biodb.TRACE[2024-07-06 16:04:26.113][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51744.xml"
biodb.DEBUG[2024-07-06 16:04:26.116][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:26.117][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:26.119][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:26.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:26.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:26.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:26.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:26.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:26.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:26.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:26.136][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:26.137][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:26.138][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.139][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:26.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:26.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.146][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:26.147][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:26.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.150][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.151][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:26.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:26.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.156][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:26.158][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:26.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.160][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.162][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:26.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:26.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.167][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:26.168][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:26.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.171][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.172][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:26.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:26.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.177][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:26.179][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:26.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.181][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:26.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:26.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.188][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:26.189][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:26.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.191][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.193][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:26.194][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:26.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.197][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.198][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:26.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:26.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.203][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:26.205][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:26.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.207][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:26.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:26.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.214][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:26.215][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:26.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.218][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.220][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:26.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:26.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.225][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:26.226][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:26.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.229][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.230][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:26.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:26.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.235][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:26.237][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:26.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.239][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.240][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:26.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:26.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:26.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:26.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:26.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:26.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:26.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:26.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:26.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:26.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:26.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:26.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:26.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:26.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:26.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:26.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:26.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:26.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:26.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:26.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:26.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:26.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:26.296][self$createEntryFromContent] Accession numbers: 51744.
biodb.TRACE[2024-07-06 16:04:26.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:26.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:26.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:26.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:26.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:26.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:26.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:26.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:26.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:26.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:26.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:26.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:26.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:26.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:26.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:26.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:26.325][private$loadEntries] Creating entries from ids [1]: "64473".
biodb.DEBUG[2024-07-06 16:04:26.326][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:26.328][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64473".
biodb.TRACE[2024-07-06 16:04:26.330][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:26.331][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:26.332][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:26.334][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:26.335][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:26.336][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:26.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:26.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:26.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:26.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:26.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:26.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:26.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:26.361][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473".
biodb.DEBUG[2024-07-06 16:04:26.365][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:26.366][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:26.368][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473".
biodb.TRACE[2024-07-06 16:04:26.750][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473).
biodb.DEBUG[2024-07-06 16:04:27.122][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:27.124][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bc75e6e381d0b772364b3d17c4c0f5e.content"
biodb.TRACE[2024-07-06 16:04:27.128][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bc75e6e381d0b772364b3d17c4c0f5e.request"
biodb.TRACE[2024-07-06 16:04:27.132][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64473.xml"
biodb.DEBUG[2024-07-06 16:04:27.134][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:27.135][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:27.137][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:27.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:27.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:27.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:27.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:27.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:27.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:27.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:27.153][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:27.154][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:27.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.157][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:27.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:27.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.163][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:27.165][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:27.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.167][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.169][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:27.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:27.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.174][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:27.175][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:27.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.177][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.179][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:27.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:27.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.184][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:27.185][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:27.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.188][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.189][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:27.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:27.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.194][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:27.195][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:27.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.198][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:27.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:27.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.204][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:27.206][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:27.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.208][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.210][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:27.211][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.213][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.215][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:27.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.220][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:27.221][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:27.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.224][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:27.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:27.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.230][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:27.232][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:27.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.234][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.236][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:27.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:27.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.241][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:27.242][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:27.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.245][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.246][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:27.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:27.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.251][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:27.253][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:27.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.255][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.257][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:27.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:27.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:27.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:27.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:27.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:27.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:27.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:27.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:27.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:27.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:27.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:27.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:27.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:27.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:27.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:27.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:27.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:27.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:27.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:27.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:27.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:27.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:27.313][self$createEntryFromContent] Accession numbers: 64473.
biodb.TRACE[2024-07-06 16:04:27.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:27.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:27.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:27.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:27.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:27.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:27.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:27.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:27.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:27.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:27.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:27.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:27.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:27.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:27.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:27.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:27.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:27.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:27.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:27.371][private$loadEntries] Creating entries from ids [1]: "75244".
biodb.DEBUG[2024-07-06 16:04:27.373][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:27.375][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75244".
biodb.TRACE[2024-07-06 16:04:27.376][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:27.378][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:27.379][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:27.380][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:27.382][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:27.383][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:27.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:27.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:27.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:27.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:27.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:27.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:27.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:27.400][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244".
biodb.DEBUG[2024-07-06 16:04:27.403][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:27.404][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:27.406][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244".
biodb.TRACE[2024-07-06 16:04:27.794][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244).
biodb.DEBUG[2024-07-06 16:04:28.177][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:28.179][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cae81bf9939177869251c540dee6df85.content"
biodb.TRACE[2024-07-06 16:04:28.183][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cae81bf9939177869251c540dee6df85.request"
biodb.TRACE[2024-07-06 16:04:28.187][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75244.xml"
biodb.DEBUG[2024-07-06 16:04:28.189][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:28.190][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:28.192][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:28.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:28.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:28.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:28.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:28.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:28.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:28.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:28.208][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:28.209][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:28.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.212][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:28.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:28.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.218][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:28.219][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:28.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.222][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.223][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:28.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:28.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.228][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:28.229][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:28.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.232][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:28.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:28.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.238][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:28.240][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:28.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.242][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:28.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:28.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.249][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:28.250][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:28.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.252][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.254][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:28.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:28.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.259][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:28.260][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:28.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.262][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.264][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:28.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:28.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.269][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:28.270][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:28.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.272][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.274][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:28.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:28.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.279][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:28.280][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:28.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.283][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:28.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:28.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.289][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:28.291][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:28.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.299][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:28.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:28.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.311][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:28.313][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:28.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.317][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:28.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:28.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.322][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:28.323][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:28.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.326][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.327][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:28.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:28.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:28.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:28.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:28.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:28.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:28.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:28.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:28.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:28.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:28.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:28.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:28.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:28.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:28.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:28.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:28.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:28.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:28.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:28.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:28.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:28.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:28.382][self$createEntryFromContent] Accession numbers: 75244.
biodb.TRACE[2024-07-06 16:04:28.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:28.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:28.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:28.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:28.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:28.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:28.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:28.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:28.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:28.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:28.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:28.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:28.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:28.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:28.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:28.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:28.411][private$loadEntries] Creating entries from ids [1]: "75311".
biodb.DEBUG[2024-07-06 16:04:28.412][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:28.414][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75311".
biodb.TRACE[2024-07-06 16:04:28.416][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:28.417][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:28.419][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:28.420][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:28.421][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:28.422][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:28.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:28.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:28.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:28.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:28.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:28.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:28.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:28.439][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311".
biodb.DEBUG[2024-07-06 16:04:28.443][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:28.444][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:28.446][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311".
biodb.TRACE[2024-07-06 16:04:28.848][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311).
biodb.DEBUG[2024-07-06 16:04:29.227][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:29.230][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4e5c0f0d646c796bdaff17cc90a3658d.content"
biodb.TRACE[2024-07-06 16:04:29.234][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4e5c0f0d646c796bdaff17cc90a3658d.request"
biodb.TRACE[2024-07-06 16:04:29.237][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75311.xml"
biodb.DEBUG[2024-07-06 16:04:29.239][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:29.241][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:29.242][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:29.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:29.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:29.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:29.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:29.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:29.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:29.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:29.259][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:29.260][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:29.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.263][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:29.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:29.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.269][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:29.271][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:29.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.273][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.275][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:29.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:29.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.280][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:29.281][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:29.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.283][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.285][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:29.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:29.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.290][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:29.291][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:29.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.294][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:29.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:29.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.301][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:29.302][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:29.303][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.304][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:29.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:29.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.311][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:29.312][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:29.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.316][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:29.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:29.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.321][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:29.323][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:29.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.325][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.326][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:29.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:29.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.332][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:29.333][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:29.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.335][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:29.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:29.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.342][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:29.343][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:29.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.346][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:29.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:29.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.353][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:29.354][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:29.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.356][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.358][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:29.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:29.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.363][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:29.364][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:29.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.367][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.368][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:29.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:29.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:29.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:29.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:29.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:29.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:29.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:29.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:29.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:29.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:29.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:29.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:29.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:29.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:29.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:29.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:29.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:29.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:29.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:29.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:29.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:29.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:29.424][self$createEntryFromContent] Accession numbers: 75311.
biodb.TRACE[2024-07-06 16:04:29.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:29.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:29.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:29.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:29.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:29.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:29.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:29.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:29.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:29.440][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:29.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:29.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:29.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:29.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:29.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:29.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:29.453][private$loadEntries] Creating entries from ids [1]: "75350".
biodb.DEBUG[2024-07-06 16:04:29.455][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:29.457][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75350".
biodb.TRACE[2024-07-06 16:04:29.458][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:29.460][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:29.461][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:29.462][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:29.464][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:29.465][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:29.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:29.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:29.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:29.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:29.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:29.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:29.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:29.482][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350".
biodb.DEBUG[2024-07-06 16:04:29.485][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:29.487][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:29.489][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350".
biodb.TRACE[2024-07-06 16:04:29.863][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350).
biodb.DEBUG[2024-07-06 16:04:30.262][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:30.264][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37625fe42e340de84bdcc226ef73c285.content"
biodb.TRACE[2024-07-06 16:04:30.286][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37625fe42e340de84bdcc226ef73c285.request"
biodb.TRACE[2024-07-06 16:04:30.290][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75350.xml"
biodb.DEBUG[2024-07-06 16:04:30.292][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:30.294][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:30.295][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:30.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:30.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:30.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:30.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:30.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:30.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:30.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:30.312][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:30.313][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:30.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:30.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:30.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.322][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:30.323][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:30.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.326][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.327][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:30.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:30.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.332][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:30.334][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:30.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.336][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.337][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:30.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:30.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.342][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:30.344][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:30.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.346][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:30.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:30.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.353][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:30.354][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:30.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.356][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.358][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:30.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:30.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.363][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:30.364][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:30.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.366][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.368][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:30.369][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:30.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.371][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.373][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:30.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:30.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.378][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:30.379][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:30.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.382][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:30.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:30.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.388][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:30.390][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:30.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.392][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:30.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:30.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.399][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:30.401][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:30.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.403][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.405][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:30.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:30.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.410][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:30.411][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:30.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.414][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.415][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:30.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:30.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:30.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:30.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:30.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:30.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:30.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:30.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:30.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:30.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:30.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:30.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:30.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:30.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:30.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:30.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:30.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:30.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:30.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:30.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:30.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:30.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:30.471][self$createEntryFromContent] Accession numbers: 75350.
biodb.TRACE[2024-07-06 16:04:30.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:30.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:30.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:30.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:30.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:30.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:30.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:30.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:30.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:30.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:30.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:30.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:30.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:30.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:30.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:30.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:30.502][private$loadEntries] Creating entries from ids [1]: "87236".
biodb.DEBUG[2024-07-06 16:04:30.503][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:30.505][cch$loadFileContent] Trying to load 1 files from cache: [1]: "87236".
biodb.TRACE[2024-07-06 16:04:30.506][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:30.508][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:30.509][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:30.510][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:30.512][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:30.513][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:30.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:30.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:30.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:30.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:30.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:30.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:30.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:30.530][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236".
biodb.DEBUG[2024-07-06 16:04:30.533][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:30.535][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:30.536][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236".
biodb.TRACE[2024-07-06 16:04:30.932][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236).
biodb.DEBUG[2024-07-06 16:04:31.355][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:31.357][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/668dc6e1fe28fb2b9645ffb56917cb44.content"
biodb.TRACE[2024-07-06 16:04:31.362][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/668dc6e1fe28fb2b9645ffb56917cb44.request"
biodb.TRACE[2024-07-06 16:04:31.365][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/87236.xml"
biodb.DEBUG[2024-07-06 16:04:31.367][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:31.368][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:31.370][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:31.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:31.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:31.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:31.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:31.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:31.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:31.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:31.387][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:31.388][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:31.389][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.390][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:31.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:31.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.397][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:31.398][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:31.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.401][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.402][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:31.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:31.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.407][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:31.409][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:31.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.411][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.413][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:31.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:31.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.418][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:31.419][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:31.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.421][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.423][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:31.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:31.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.428][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:31.429][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:31.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.432][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:31.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:31.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.439][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:31.440][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:31.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.442][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.444][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:31.445][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:31.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.448][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.449][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:31.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:31.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.454][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:31.456][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:31.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.458][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:31.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:31.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.465][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:31.466][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:31.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.468][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.470][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:31.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:31.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.475][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:31.476][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:31.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.479][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.480][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:31.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:31.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.485][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:31.487][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:31.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.489][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.491][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:31.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:31.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:31.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:31.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:31.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:31.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:31.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:31.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:31.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:31.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:31.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:31.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:31.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:31.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:31.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:31.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:31.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:31.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:31.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:31.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:31.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:31.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:31.555][self$createEntryFromContent] Accession numbers: 87236.
biodb.TRACE[2024-07-06 16:04:31.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:31.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:31.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:31.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:31.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:31.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:31.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:31.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:31.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:31.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:31.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:31.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:31.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:31.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:31.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:31.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:31.585][private$loadEntries] Creating entries from ids [1]: "132193".
biodb.DEBUG[2024-07-06 16:04:31.586][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:31.588][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132193".
biodb.TRACE[2024-07-06 16:04:31.589][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:31.591][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:31.592][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:31.593][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:31.595][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:31.596][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:31.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:31.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:31.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:31.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:31.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:31.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:31.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:31.612][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193".
biodb.DEBUG[2024-07-06 16:04:31.616][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:31.617][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:31.619][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193".
biodb.TRACE[2024-07-06 16:04:32.090][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193).
biodb.DEBUG[2024-07-06 16:04:32.598][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:32.600][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/485d54e768e8b3a26016a2841d39a83c.content"
biodb.TRACE[2024-07-06 16:04:32.605][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/485d54e768e8b3a26016a2841d39a83c.request"
biodb.TRACE[2024-07-06 16:04:32.608][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132193.xml"
biodb.DEBUG[2024-07-06 16:04:32.610][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:32.611][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:32.613][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:32.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:32.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:32.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:32.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:32.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:32.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:32.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:32.630][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:32.631][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:32.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.633][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:32.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:32.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.640][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:32.641][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:32.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.644][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.645][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:32.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:32.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.650][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:32.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:32.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.654][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.655][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:32.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:32.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.660][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:32.662][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:32.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.664][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:32.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:32.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.671][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:32.672][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:32.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.674][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:32.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:32.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.681][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:32.682][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:32.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.685][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.686][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:32.688][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:32.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.690][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.691][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:32.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:32.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.696][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:32.698][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:32.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.700][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:32.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:32.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.707][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:32.708][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:32.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.710][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.712][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:32.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:32.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.718][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:32.720][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:32.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.722][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.724][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:32.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:32.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.729][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:32.730][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:32.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.733][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.734][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:32.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:32.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:32.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:32.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:32.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:32.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:32.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:32.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:32.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:32.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:32.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:32.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:32.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:32.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:32.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:32.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:32.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:32.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:32.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:32.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:32.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:32.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:32.792][self$createEntryFromContent] Accession numbers: 132193.
biodb.TRACE[2024-07-06 16:04:32.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:32.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:32.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:32.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:32.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:32.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:32.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:32.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:32.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:32.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:32.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:32.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:32.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:32.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:32.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:32.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:32.822][private$loadEntries] Creating entries from ids [1]: "146002".
biodb.DEBUG[2024-07-06 16:04:32.824][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:32.826][cch$loadFileContent] Trying to load 1 files from cache: [1]: "146002".
biodb.TRACE[2024-07-06 16:04:32.827][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:32.829][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:32.830][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:32.831][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:32.833][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:32.834][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:32.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:32.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:32.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:32.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:32.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:32.849][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:32.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:32.852][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002".
biodb.DEBUG[2024-07-06 16:04:32.855][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:32.857][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:32.858][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002".
biodb.TRACE[2024-07-06 16:04:33.236][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002).
biodb.DEBUG[2024-07-06 16:04:33.659][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:33.662][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f6f6aad2df3f38cd332b2e82fd62eca2.content"
biodb.TRACE[2024-07-06 16:04:33.667][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f6f6aad2df3f38cd332b2e82fd62eca2.request"
biodb.TRACE[2024-07-06 16:04:33.670][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/146002.xml"
biodb.DEBUG[2024-07-06 16:04:33.673][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:33.675][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:33.676][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:33.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:33.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:33.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:33.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:33.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:33.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:33.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:33.694][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:33.695][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:33.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.698][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:33.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:33.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.705][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:33.706][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:33.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.709][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.711][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:33.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:33.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.716][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:33.718][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:33.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.720][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.722][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:33.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:33.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.727][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:33.728][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:33.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.731][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:33.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:33.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.750][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:33.751][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:33.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.753][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:33.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:33.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.760][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:33.761][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:33.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.764][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.765][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:33.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:33.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.769][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.770][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:33.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:33.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.776][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:33.777][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:33.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.779][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:33.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:33.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.786][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:33.787][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:33.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.790][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.791][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:33.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:33.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.796][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:33.798][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:33.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.800][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.801][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:33.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:33.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.807][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:33.808][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:33.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.810][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.812][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:33.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:33.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:33.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:33.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:33.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:33.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:33.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:33.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:33.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:33.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:33.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:33.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:33.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:33.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:33.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:33.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:33.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:33.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:33.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:33.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:33.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:33.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:33.868][self$createEntryFromContent] Accession numbers: 146002.
biodb.TRACE[2024-07-06 16:04:33.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:33.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:33.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:33.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:33.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:33.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:33.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:33.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:33.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:33.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:33.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:33.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:33.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:33.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:33.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:33.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:33.899][private$loadEntries] Creating entries from ids [1]: "65641".
biodb.DEBUG[2024-07-06 16:04:33.900][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:33.902][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65641".
biodb.TRACE[2024-07-06 16:04:33.904][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:33.905][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:33.906][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:33.908][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:33.909][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:33.910][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:33.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:33.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:33.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:33.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:33.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:33.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:33.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:33.927][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641".
biodb.DEBUG[2024-07-06 16:04:33.930][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:33.932][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:33.933][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641".
biodb.TRACE[2024-07-06 16:04:34.322][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641).
biodb.DEBUG[2024-07-06 16:04:34.713][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:34.716][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cb3af00d6d6a96efc61a93d5105272fc.content"
biodb.TRACE[2024-07-06 16:04:34.720][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cb3af00d6d6a96efc61a93d5105272fc.request"
biodb.TRACE[2024-07-06 16:04:34.723][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65641.xml"
biodb.DEBUG[2024-07-06 16:04:34.726][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:34.727][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:34.729][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:34.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:34.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:34.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:34.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:34.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:34.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:34.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:34.745][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:34.746][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:34.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.748][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:34.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:34.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.755][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:34.756][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:34.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.759][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.760][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:34.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:34.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.765][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:34.766][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:34.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.769][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.770][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:34.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:34.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.775][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:34.777][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:34.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.779][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:34.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:34.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.785][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:34.787][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:34.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.789][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.790][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:34.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:34.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.795][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:34.797][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:34.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.799][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.800][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:34.802][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:34.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.804][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.806][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:34.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:34.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.811][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:34.812][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:34.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.815][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:34.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:34.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.821][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:34.823][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:34.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.825][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.827][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:34.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:34.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.832][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:34.833][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:34.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.835][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.837][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:34.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:34.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.842][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:34.843][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:34.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.845][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.847][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:34.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:34.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:34.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:34.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:34.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:34.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:34.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:34.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:34.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:34.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:34.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:34.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:34.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:34.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:34.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:34.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:34.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:34.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:34.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:34.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:34.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:34.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:34.901][self$createEntryFromContent] Accession numbers: 65641.
biodb.TRACE[2024-07-06 16:04:34.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:34.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:34.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:34.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:34.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:34.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:34.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:34.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:34.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:34.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:34.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:34.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:34.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:34.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:34.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:34.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:34.931][private$loadEntries] Creating entries from ids [1]: "144071".
biodb.DEBUG[2024-07-06 16:04:34.932][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:34.934][cch$loadFileContent] Trying to load 1 files from cache: [1]: "144071".
biodb.TRACE[2024-07-06 16:04:34.936][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:34.945][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:34.947][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:34.948][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:34.950][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:34.951][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:34.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:34.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:34.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:34.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:34.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:34.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:34.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:34.967][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071".
biodb.DEBUG[2024-07-06 16:04:34.971][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:34.972][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:34.974][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071".
biodb.TRACE[2024-07-06 16:04:35.397][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071).
biodb.DEBUG[2024-07-06 16:04:35.793][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:35.796][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/147c6b10a8e09e725fbbb250103f039d.content"
biodb.TRACE[2024-07-06 16:04:35.801][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/147c6b10a8e09e725fbbb250103f039d.request"
biodb.TRACE[2024-07-06 16:04:35.804][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/144071.xml"
biodb.DEBUG[2024-07-06 16:04:35.806][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:35.808][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:35.809][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:35.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:35.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:35.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:35.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:35.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:35.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:35.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:35.826][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:35.827][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:35.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.830][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:35.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:35.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.837][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:35.838][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:35.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.840][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.842][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:35.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:35.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.847][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:35.848][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:35.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.850][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.852][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:35.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:35.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.857][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:35.859][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:35.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.861][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.862][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:35.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:35.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.867][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:35.869][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:35.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.871][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:35.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:35.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.877][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:35.879][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:35.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.881][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.883][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:35.884][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:35.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.886][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.888][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:35.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:35.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.893][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:35.894][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:35.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.896][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:35.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:35.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.903][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:35.904][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:35.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.907][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:35.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:35.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.914][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:35.915][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:35.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.917][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.919][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:35.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:35.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.924][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:35.925][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:35.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.927][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.929][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:35.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:35.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:35.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:35.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:35.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:35.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:35.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:35.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:35.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:35.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:35.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:35.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:35.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:35.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:35.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:35.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:35.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:35.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:35.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:35.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:35.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:35.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:35.983][self$createEntryFromContent] Accession numbers: 144071.
biodb.TRACE[2024-07-06 16:04:35.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:35.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:35.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:35.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:35.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:35.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:35.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:35.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:35.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:36.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:36.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:36.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:36.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:36.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:36.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:36.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:36.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:36.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:36.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:36.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:36.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:36.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:36.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:36.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:36.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:36.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:36.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:36.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:36.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:36.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:36.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:36.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:36.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:36.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:36.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:36.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:36.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:36.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:36.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:36.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:36.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:36.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:36.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:36.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:36.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:36.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:36.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:36.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:36.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:36.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:36.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:36.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:36.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:36.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:36.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:36.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:36.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:36.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:36.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:36.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:36.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:36.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:36.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:36.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:36.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:36.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:36.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:36.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:36.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:36.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:36.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:36.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:36.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:36.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:36.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:36.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:36.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:36.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:36.193][private$loadEntries] Creating entries from ids [1]: "168650".
biodb.DEBUG[2024-07-06 16:04:36.195][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:36.197][cch$loadFileContent] Trying to load 1 files from cache: [1]: "168650".
biodb.TRACE[2024-07-06 16:04:36.198][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:36.200][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:36.201][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:36.202][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:36.203][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:36.205][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:36.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:36.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:36.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:36.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:36.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:36.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:36.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:36.221][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650".
biodb.DEBUG[2024-07-06 16:04:36.224][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:36.225][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:36.227][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650".
biodb.TRACE[2024-07-06 16:04:36.608][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650).
biodb.DEBUG[2024-07-06 16:04:37.001][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:37.003][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fbd7acd341e86313aeb547b3d6d3201b.content"
biodb.TRACE[2024-07-06 16:04:37.007][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fbd7acd341e86313aeb547b3d6d3201b.request"
biodb.TRACE[2024-07-06 16:04:37.011][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/168650.xml"
biodb.DEBUG[2024-07-06 16:04:37.012][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:37.014][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:37.015][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:37.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:37.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:37.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:37.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:37.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:37.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:37.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:37.032][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:37.034][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:37.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.036][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:37.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:37.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.043][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:37.044][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:37.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.046][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.048][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:37.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:37.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.053][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:37.054][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:37.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.057][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.058][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:37.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:37.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.063][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:37.065][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:37.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.067][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:37.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:37.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.074][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:37.075][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:37.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.077][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:37.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:37.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.084][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:37.086][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:37.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.088][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.090][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:37.091][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.093][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.095][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:37.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.100][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:37.102][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:37.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.104][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:37.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:37.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.111][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:37.112][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:37.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.115][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.117][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:37.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:37.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.122][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:37.124][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:37.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.126][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.128][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:37.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:37.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.133][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:37.135][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:37.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.137][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.139][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:37.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:37.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:37.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:37.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:37.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:37.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:37.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:37.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:37.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:37.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:37.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:37.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:37.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:37.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:37.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:37.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:37.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:37.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:37.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:37.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:37.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:37.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:37.197][self$createEntryFromContent] Accession numbers: 168650.
biodb.TRACE[2024-07-06 16:04:37.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:37.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:37.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:37.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:37.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:37.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:37.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:37.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:37.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:37.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:37.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:37.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:37.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:37.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:37.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:37.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:37.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:37.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:37.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:37.256][private$loadEntries] Creating entries from ids [1]: "169305".
biodb.DEBUG[2024-07-06 16:04:37.257][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:37.259][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169305".
biodb.TRACE[2024-07-06 16:04:37.261][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:37.262][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:37.263][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:37.265][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:37.266][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:37.267][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:37.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:37.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:37.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:37.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:37.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:37.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:37.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:37.284][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305".
biodb.DEBUG[2024-07-06 16:04:37.287][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:37.288][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:37.290][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305".
biodb.TRACE[2024-07-06 16:04:37.700][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305).
biodb.DEBUG[2024-07-06 16:04:38.095][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:38.097][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5eab934e4cfb5514f373385a6170c282.content"
biodb.TRACE[2024-07-06 16:04:38.102][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5eab934e4cfb5514f373385a6170c282.request"
biodb.TRACE[2024-07-06 16:04:38.105][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169305.xml"
biodb.DEBUG[2024-07-06 16:04:38.107][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:38.109][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:38.110][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:38.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:38.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:38.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:38.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:38.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:38.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:38.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:38.126][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:38.128][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:38.129][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.130][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:38.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:38.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.137][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:38.138][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:38.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.140][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.142][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:38.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:38.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.147][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:38.148][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:38.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.151][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.152][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:38.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:38.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.158][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:38.159][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:38.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.161][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.163][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:38.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:38.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.168][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:38.169][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:38.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.172][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.173][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:38.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:38.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.178][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:38.180][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:38.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.182][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.183][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:38.196][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:38.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.199][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.200][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:38.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:38.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.206][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:38.207][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:38.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.209][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:38.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:38.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.216][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:38.217][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:38.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.220][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:38.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:38.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.227][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:38.228][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:38.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.230][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.232][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:38.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:38.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.237][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:38.239][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:38.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.241][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.243][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:38.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:38.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:38.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:38.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:38.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:38.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:38.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:38.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:38.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:38.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:38.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:38.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:38.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:38.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:38.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:38.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:38.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:38.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:38.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:38.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:38.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:38.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:38.299][self$createEntryFromContent] Accession numbers: 169305.
biodb.TRACE[2024-07-06 16:04:38.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:38.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:38.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:38.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:38.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:38.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:38.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:38.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:38.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:38.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:38.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:38.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:38.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:38.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:38.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:38.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:38.328][private$loadEntries] Creating entries from ids [1]: "176869".
biodb.DEBUG[2024-07-06 16:04:38.329][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:38.332][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176869".
biodb.TRACE[2024-07-06 16:04:38.333][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:38.334][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:38.336][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:38.337][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:38.338][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:38.339][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:38.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:38.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:38.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:38.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:38.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:38.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:38.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:38.356][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869".
biodb.DEBUG[2024-07-06 16:04:38.359][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:38.360][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:38.362][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869".
biodb.TRACE[2024-07-06 16:04:38.769][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869).
biodb.DEBUG[2024-07-06 16:04:39.138][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:39.140][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2c477fa42863c662724815d047e8c32.content"
biodb.TRACE[2024-07-06 16:04:39.145][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2c477fa42863c662724815d047e8c32.request"
biodb.TRACE[2024-07-06 16:04:39.148][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176869.xml"
biodb.DEBUG[2024-07-06 16:04:39.150][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:39.152][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:39.153][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:39.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:39.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:39.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:39.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:39.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:39.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:39.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:39.170][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:39.172][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:39.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.174][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:39.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:39.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.181][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:39.182][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:39.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.185][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.186][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:39.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:39.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.191][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:39.193][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:39.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.195][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.197][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:39.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:39.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.202][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:39.204][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:39.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.206][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:39.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:39.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.213][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:39.214][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:39.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.217][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:39.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:39.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.223][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:39.225][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:39.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.227][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.229][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:39.230][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:39.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.233][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.234][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:39.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:39.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.239][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:39.241][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:39.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.243][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:39.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:39.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.250][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:39.251][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:39.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.254][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:39.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:39.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.261][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:39.262][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:39.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.264][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.266][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:39.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:39.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.272][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:39.273][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:39.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.275][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.277][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:39.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:39.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:39.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:39.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:39.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:39.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:39.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:39.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:39.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:39.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:39.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:39.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:39.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:39.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:39.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:39.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:39.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:39.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:39.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:39.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:39.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:39.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:39.333][self$createEntryFromContent] Accession numbers: 176869.
biodb.TRACE[2024-07-06 16:04:39.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:39.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:39.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:39.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:39.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:39.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:39.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:39.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:39.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:39.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:39.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:39.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:39.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:39.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:39.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:39.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:39.363][private$loadEntries] Creating entries from ids [1]: "185696".
biodb.DEBUG[2024-07-06 16:04:39.364][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:39.366][cch$loadFileContent] Trying to load 1 files from cache: [1]: "185696".
biodb.TRACE[2024-07-06 16:04:39.368][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:39.369][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:39.370][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:39.372][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:39.373][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:39.374][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:39.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:39.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:39.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:39.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:39.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:39.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:39.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:39.400][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696".
biodb.DEBUG[2024-07-06 16:04:39.404][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:39.405][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:39.407][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696".
biodb.TRACE[2024-07-06 16:04:39.783][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696).
biodb.DEBUG[2024-07-06 16:04:40.273][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:40.275][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/030ac759c83231dbd7b7d6c83788888c.content"
biodb.TRACE[2024-07-06 16:04:40.280][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/030ac759c83231dbd7b7d6c83788888c.request"
biodb.TRACE[2024-07-06 16:04:40.283][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/185696.xml"
biodb.DEBUG[2024-07-06 16:04:40.285][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:40.287][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:40.288][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:40.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:40.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:40.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:40.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:40.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:40.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:40.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:40.305][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:40.306][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:40.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.309][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:40.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:40.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.315][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:40.317][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:40.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.319][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.320][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:40.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:40.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.326][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:40.327][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:40.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.329][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.331][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:40.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:40.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.336][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:40.338][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:40.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.340][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.342][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:40.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:40.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.347][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:40.348][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:40.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.351][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:40.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:40.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.357][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:40.359][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:40.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.361][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.362][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:40.364][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:40.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.366][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.368][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:40.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:40.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.373][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:40.374][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:40.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.377][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:40.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:40.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.383][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:40.385][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:40.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.387][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.389][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:40.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:40.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.394][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:40.395][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:40.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.398][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.399][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:40.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:40.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.405][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:40.406][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:40.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.409][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.410][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:40.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:40.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:40.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:40.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:40.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:40.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:40.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:40.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:40.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:40.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:40.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:40.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:40.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:40.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:40.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:40.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:40.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:40.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:40.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:40.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:40.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:40.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:40.472][self$createEntryFromContent] Accession numbers: 185696.
biodb.TRACE[2024-07-06 16:04:40.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:40.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:40.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:40.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:40.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:40.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:40.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:40.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:40.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:40.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:40.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:40.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:40.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:40.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:40.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:40.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:40.502][private$loadEntries] Creating entries from ids [1]: "190762".
biodb.DEBUG[2024-07-06 16:04:40.503][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:40.505][cch$loadFileContent] Trying to load 1 files from cache: [1]: "190762".
biodb.TRACE[2024-07-06 16:04:40.507][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:40.508][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:40.509][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:40.511][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:40.512][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:40.513][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:40.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:40.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:40.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:40.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:40.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:40.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:40.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:40.529][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762".
biodb.DEBUG[2024-07-06 16:04:40.533][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:40.534][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:40.536][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762".
biodb.TRACE[2024-07-06 16:04:40.919][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762).
biodb.DEBUG[2024-07-06 16:04:41.288][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:41.291][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fa9da4de7d7dc0d4458ab1ff7bbbbda0.content"
biodb.TRACE[2024-07-06 16:04:41.296][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fa9da4de7d7dc0d4458ab1ff7bbbbda0.request"
biodb.TRACE[2024-07-06 16:04:41.299][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/190762.xml"
biodb.DEBUG[2024-07-06 16:04:41.301][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:41.302][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:41.304][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:41.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:41.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:41.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:41.314][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:41.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:41.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:41.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:41.320][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:41.322][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:41.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.324][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:41.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:41.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.331][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:41.332][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:41.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.334][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.336][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:41.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:41.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.341][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:41.342][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:41.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.345][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.347][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:41.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:41.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.352][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:41.353][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:41.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.355][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:41.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:41.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.362][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:41.363][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:41.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.366][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:41.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:41.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.372][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:41.373][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:41.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.376][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.377][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:41.379][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:41.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.381][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.383][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:41.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:41.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.388][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:41.389][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:41.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.391][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:41.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:41.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.398][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:41.399][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:41.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.402][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.403][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:41.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:41.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.409][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:41.410][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:41.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.413][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.414][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:41.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:41.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.419][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:41.421][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:41.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.423][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.425][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:41.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:41.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:41.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:41.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:41.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:41.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:41.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:41.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:41.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:41.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:41.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:41.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:41.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:41.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:41.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:41.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:41.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:41.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:41.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:41.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:41.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:41.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:41.493][self$createEntryFromContent] Accession numbers: 190762.
biodb.TRACE[2024-07-06 16:04:41.494][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:41.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:41.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:41.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:41.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:41.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:41.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:41.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:41.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:41.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:41.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:41.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:41.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:41.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:41.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:41.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:41.522][private$loadEntries] Creating entries from ids [1]: "193176".
biodb.DEBUG[2024-07-06 16:04:41.524][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:41.525][cch$loadFileContent] Trying to load 1 files from cache: [1]: "193176".
biodb.TRACE[2024-07-06 16:04:41.527][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:41.528][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:41.530][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:41.531][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:41.532][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:41.534][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:41.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:41.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:41.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:41.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:41.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:41.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:41.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:41.550][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176".
biodb.DEBUG[2024-07-06 16:04:41.554][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:41.555][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:41.557][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176".
biodb.TRACE[2024-07-06 16:04:41.926][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176).
biodb.DEBUG[2024-07-06 16:04:42.299][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:42.301][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/343c078fd7b00f04bd71e6f2aebb6ed3.content"
biodb.TRACE[2024-07-06 16:04:42.305][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/343c078fd7b00f04bd71e6f2aebb6ed3.request"
biodb.TRACE[2024-07-06 16:04:42.309][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/193176.xml"
biodb.DEBUG[2024-07-06 16:04:42.311][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:42.312][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:42.314][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:42.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:42.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:42.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:42.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:42.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:42.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:42.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:42.330][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:42.332][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:42.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.334][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:42.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:42.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.341][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:42.342][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:42.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.345][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.346][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:42.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:42.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.351][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:42.353][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:42.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.355][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.357][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:42.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:42.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.362][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:42.363][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:42.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.366][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:42.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:42.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.372][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:42.374][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:42.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.376][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:42.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:42.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.383][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:42.384][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:42.385][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.386][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.388][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:42.389][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:42.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.392][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.393][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:42.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:42.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.398][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:42.400][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:42.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.402][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:42.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:42.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.409][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:42.410][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:42.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.412][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.414][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:42.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:42.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.419][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:42.420][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:42.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.423][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.424][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:42.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:42.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.429][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:42.431][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:42.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.433][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.435][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:42.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:42.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:42.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:42.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:42.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:42.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:42.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:42.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:42.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:42.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:42.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:42.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:42.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:42.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:42.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:42.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:42.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:42.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:42.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:42.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:42.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:42.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:42.491][self$createEntryFromContent] Accession numbers: 193176.
biodb.TRACE[2024-07-06 16:04:42.492][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:42.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:42.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:42.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:42.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:42.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:42.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:42.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:42.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:42.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:42.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:42.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:42.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:42.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:42.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:42.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:42.521][private$loadEntries] Creating entries from ids [1]: "196395".
biodb.DEBUG[2024-07-06 16:04:42.522][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:42.524][cch$loadFileContent] Trying to load 1 files from cache: [1]: "196395".
biodb.TRACE[2024-07-06 16:04:42.525][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:42.527][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:42.528][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:42.529][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:42.531][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:42.532][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:42.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:42.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:42.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:42.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:42.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:42.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:42.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:42.549][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395".
biodb.DEBUG[2024-07-06 16:04:42.552][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:42.553][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:42.555][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395".
biodb.TRACE[2024-07-06 16:04:42.931][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395).
biodb.DEBUG[2024-07-06 16:04:43.311][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:43.314][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/73421bc681b7c5ac1a6297ef414ac513.content"
biodb.TRACE[2024-07-06 16:04:43.318][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/73421bc681b7c5ac1a6297ef414ac513.request"
biodb.TRACE[2024-07-06 16:04:43.321][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/196395.xml"
biodb.DEBUG[2024-07-06 16:04:43.323][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:43.325][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:43.326][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:43.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:43.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:43.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:43.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:43.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:43.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:43.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:43.343][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:43.344][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:43.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.347][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:43.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:43.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.353][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:43.355][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:43.356][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.363][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.370][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:43.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:43.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.376][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:43.377][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:43.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.379][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.381][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:43.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:43.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.386][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:43.388][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:43.389][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.390][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.392][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:43.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:43.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.397][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:43.398][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:43.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.400][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:43.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:43.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.407][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:43.408][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:43.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.410][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.412][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:43.413][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.416][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.418][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:43.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.423][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:43.424][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:43.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.426][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:43.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:43.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.434][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:43.435][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:43.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.438][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:43.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:43.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.444][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:43.446][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:43.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.448][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.450][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:43.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:43.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.455][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:43.456][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:43.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.459][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.460][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:43.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:43.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:43.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:43.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:43.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:43.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:43.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:43.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:43.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:43.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:43.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:43.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:43.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:43.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:43.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:43.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:43.517][self$createEntryFromContent] Accession numbers: 196395.
biodb.TRACE[2024-07-06 16:04:43.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:43.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:43.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:43.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:43.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:43.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:43.545][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:43.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:43.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:43.563][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:43.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:43.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:43.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:43.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:43.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:43.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:43.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:43.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.589][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.590][private$selectFields]
biodb.TRACE[2024-07-06 16:04:43.591][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:43.592][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:43.593][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.595][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.596][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.598][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.600][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.601][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.603][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.605][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.606][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.607][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.611][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.612][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:43.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.630][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-07-06 16:04:43.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:43.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:43.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:43.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:43.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:43.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:43.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:43.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.656][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.657][private$selectFields]
biodb.TRACE[2024-07-06 16:04:43.658][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:43.660][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:43.661][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.662][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.663][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.666][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.668][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.671][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.672][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.673][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.674][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.676][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.678][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.679][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:43.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.696][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-07-06 16:04:43.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:43.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:43.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:43.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:43.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:43.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:43.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:43.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.721][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.722][private$selectFields]
biodb.TRACE[2024-07-06 16:04:43.723][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:43.725][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:43.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.727][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.731][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.732][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.733][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.736][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.737][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.739][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.740][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.744][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.745][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:43.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.762][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-07-06 16:04:43.763][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:43.764][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:43.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:43.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:43.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:43.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:43.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:43.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:43.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:43.813][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:43.817][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:43.819][cch$loadFileContent] Trying to load 1 files from cache: [1]: "ebf8c17fa19fb0caf99d83ca8441a2ac".
biodb.TRACE[2024-07-06 16:04:43.820][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:43.822][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.content".
biodb.DEBUG[2024-07-06 16:04:43.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:43.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:43.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:43.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:43.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:43.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:43.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:43.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:43.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:43.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:43.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:43.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:43.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:43.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:43.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:43.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:43.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:43.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:43.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:43.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:43.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:43.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:43.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:43.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:43.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:43.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:43.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:43.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:43.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:43.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:43.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:43.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:43.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:43.943][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:43.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:43.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:43.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:43.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:43.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:43.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:43.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:43.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.968][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.969][private$selectFields]
biodb.TRACE[2024-07-06 16:04:43.971][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:43.972][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:43.973][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.974][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.976][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.978][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.979][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.980][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.983][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.984][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.985][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:43.986][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.988][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.990][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.992][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:43.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:43.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:43.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:43.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.009][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-07-06 16:04:44.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.034][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.035][private$selectFields]
biodb.TRACE[2024-07-06 16:04:44.036][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:44.037][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:44.038][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.040][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.041][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.043][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.045][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.046][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.048][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.050][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.051][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.052][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.054][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.056][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.057][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:44.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.074][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [8021].
biodb.DEBUG[2024-07-06 16:04:44.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.098][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.099][private$selectFields]
biodb.TRACE[2024-07-06 16:04:44.101][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:44.102][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:44.103][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.104][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.106][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.108][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.109][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.110][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.113][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.114][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.115][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.117][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.118][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.120][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.122][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:44.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.138][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [30382].
biodb.DEBUG[2024-07-06 16:04:44.140][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:44.141][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:44.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:44.161][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:44.165][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:44.167][cch$loadFileContent] Trying to load 1 files from cache: [1]: "152225e020c3e5947a0f5a90f021cee7".
biodb.TRACE[2024-07-06 16:04:44.169][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:44.170][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.content".
biodb.DEBUG[2024-07-06 16:04:44.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:44.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:44.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.248][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:44.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:44.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:44.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:44.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:44.383][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:44.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.408][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.410][private$selectFields]
biodb.TRACE[2024-07-06 16:04:44.411][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:44.412][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:44.413][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.414][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.416][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.418][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.419][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.423][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.424][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.426][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.427][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.428][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.431][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.432][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:44.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.449][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65530].
biodb.DEBUG[2024-07-06 16:04:44.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.475][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.476][private$selectFields]
biodb.TRACE[2024-07-06 16:04:44.477][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:44.478][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:44.480][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.481][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.482][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.485][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.486][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.488][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.490][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.491][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.493][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.494][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.495][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.498][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.499][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:44.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.516][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [90204].
biodb.DEBUG[2024-07-06 16:04:44.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.528][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.541][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.542][private$selectFields]
biodb.TRACE[2024-07-06 16:04:44.544][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:44.545][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:44.546][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.547][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.549][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.551][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.552][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.554][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.556][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.557][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.559][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.560][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.561][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.564][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.565][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:44.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.582][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132793].
biodb.DEBUG[2024-07-06 16:04:44.583][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:44.584][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:44.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:44.603][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:44.607][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:44.609][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9686ce9c957a368dd8f5b4cc9c5b15b3".
biodb.TRACE[2024-07-06 16:04:44.610][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:44.612][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.content".
biodb.DEBUG[2024-07-06 16:04:44.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:44.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:44.680][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:44.684][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:44.686][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5d833e77a1be58060d0c3916a1e1b293".
biodb.TRACE[2024-07-06 16:04:44.688][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:44.689][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.content".
biodb.DEBUG[2024-07-06 16:04:44.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:44.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:44.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:44.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:44.780][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:44.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.806][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.807][private$selectFields]
biodb.TRACE[2024-07-06 16:04:44.808][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:44.809][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:44.810][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.812][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.813][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.815][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.817][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.820][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.822][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.823][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.824][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.825][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.827][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.828][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.829][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:44.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.846][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51836].
biodb.DEBUG[2024-07-06 16:04:44.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.849][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.872][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.873][private$selectFields]
biodb.TRACE[2024-07-06 16:04:44.874][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:44.876][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:44.877][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.878][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.880][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.883][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.884][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.885][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.888][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.889][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.890][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.891][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.893][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.895][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.896][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:44.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.914][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51837].
biodb.DEBUG[2024-07-06 16:04:44.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:44.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:44.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:44.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:44.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:44.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:44.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:44.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.939][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.940][private$selectFields]
biodb.TRACE[2024-07-06 16:04:44.941][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:44.943][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:44.944][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.946][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.949][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.952][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.954][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.955][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.956][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:44.958][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.961][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.963][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:44.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:44.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:44.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:44.980][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132205].
biodb.DEBUG[2024-07-06 16:04:44.982][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:44.983][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:45.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:45.026][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:45.030][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:45.032][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-06 16:04:45.034][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:45.035][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-06 16:04:45.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.068][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:45.072][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:45.074][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-06 16:04:45.075][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:45.077][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-06 16:04:45.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.145][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:45.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.170][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.171][private$selectFields]
biodb.TRACE[2024-07-06 16:04:45.172][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:45.173][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:45.175][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.176][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.178][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.180][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.181][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.183][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.185][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.188][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.189][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.192][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.194][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:45.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.210][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-06 16:04:45.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.235][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.236][private$selectFields]
biodb.TRACE[2024-07-06 16:04:45.237][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:45.238][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:45.240][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.241][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.242][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.245][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.246][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.247][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.250][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.251][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.252][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.253][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.255][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.257][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.259][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:45.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.276][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:04:45.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.301][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.302][private$selectFields]
biodb.TRACE[2024-07-06 16:04:45.303][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:45.304][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:45.306][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.308][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.311][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.312][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.313][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.316][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.317][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.318][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.319][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.321][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.323][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.324][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:45.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.341][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-06 16:04:45.343][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:45.344][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:45.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:45.362][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:45.366][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:45.368][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-07-06 16:04:45.370][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:45.371][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-07-06 16:04:45.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.433][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:45.437][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:45.439][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-07-06 16:04:45.440][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:45.442][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-07-06 16:04:45.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.539][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:45.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.568][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.569][private$selectFields]
biodb.TRACE[2024-07-06 16:04:45.570][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:45.571][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:45.573][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.574][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.575][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.578][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.579][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.580][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.583][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.584][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.585][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.587][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.589][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.591][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.592][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:45.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.613][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:04:45.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.638][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.639][private$selectFields]
biodb.TRACE[2024-07-06 16:04:45.641][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:45.642][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:45.643][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.644][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.646][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.648][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.649][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.651][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.653][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.654][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.655][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.660][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.662][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:45.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.679][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-07-06 16:04:45.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.704][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.705][private$selectFields]
biodb.TRACE[2024-07-06 16:04:45.706][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:45.707][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:45.709][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.710][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.711][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.714][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.715][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.716][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.719][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.720][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.721][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:45.722][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.724][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.726][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.727][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:45.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:45.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.745][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-07-06 16:04:45.746][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:45.747][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:45.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:45.766][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:45.770][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:45.772][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-07-06 16:04:45.774][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:45.776][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-07-06 16:04:45.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:45.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:45.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:45.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:45.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:45.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:45.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:45.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:45.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:45.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:45.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:45.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.014][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:46.018][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:46.019][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-07-06 16:04:46.021][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:46.023][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-07-06 16:04:46.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.111][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:46.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.137][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.138][private$selectFields]
biodb.TRACE[2024-07-06 16:04:46.139][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:46.140][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:46.141][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.143][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.144][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.147][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.148][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.149][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.152][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.153][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.154][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.155][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.157][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.159][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.160][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:46.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.177][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-07-06 16:04:46.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.203][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.204][private$selectFields]
biodb.TRACE[2024-07-06 16:04:46.206][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:46.207][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:46.208][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.209][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.211][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.213][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.214][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.216][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.218][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.219][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.220][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.225][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.227][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:46.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.243][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-07-06 16:04:46.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.268][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.269][private$selectFields]
biodb.TRACE[2024-07-06 16:04:46.270][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:46.272][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:46.273][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.274][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.276][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.278][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.279][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.281][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.283][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.284][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.286][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.287][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.288][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.291][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.292][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:46.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.309][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-07-06 16:04:46.310][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:46.311][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:46.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:46.353][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:46.357][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:46.359][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2b6f29bb7a7663ff23fb5e7dcae5c27f".
biodb.TRACE[2024-07-06 16:04:46.360][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:46.362][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.content".
biodb.DEBUG[2024-07-06 16:04:46.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.493][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.495][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.542][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:46.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.568][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.569][private$selectFields]
biodb.TRACE[2024-07-06 16:04:46.570][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:46.571][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:46.573][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.574][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.575][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.577][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.579][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.580][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.582][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.584][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.585][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.586][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.587][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.590][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.591][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:46.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.608][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:04:46.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.620][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.633][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.634][private$selectFields]
biodb.TRACE[2024-07-06 16:04:46.635][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:46.636][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:46.638][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.639][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.640][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.643][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.644][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.645][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.647][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.649][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.650][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.651][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.652][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.655][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.656][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:46.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.672][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [28243].
biodb.DEBUG[2024-07-06 16:04:46.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.697][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.698][private$selectFields]
biodb.TRACE[2024-07-06 16:04:46.699][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:46.700][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:46.701][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.703][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.704][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.705][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.706][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.708][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.709][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.711][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.714][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.715][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.716][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.719][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.720][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:46.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.737][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [78144].
biodb.DEBUG[2024-07-06 16:04:46.738][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:46.739][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:46.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:46.757][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:46.761][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:46.762][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9a13652ab89a613a3b0e10d3b6cb10a0".
biodb.TRACE[2024-07-06 16:04:46.764][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:46.766][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.content".
biodb.DEBUG[2024-07-06 16:04:46.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:46.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:46.864][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:46.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.888][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.889][private$selectFields]
biodb.TRACE[2024-07-06 16:04:46.891][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:46.892][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:46.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.896][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.898][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.901][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.903][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.904][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.906][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.907][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.909][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.911][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.912][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:46.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.929][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:04:46.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:46.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:46.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:46.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:46.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:46.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.954][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.956][private$selectFields]
biodb.TRACE[2024-07-06 16:04:46.957][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:46.958][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:46.959][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.960][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.962][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.964][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.965][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.967][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.969][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.970][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.972][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:46.973][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.974][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.976][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.978][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:46.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:46.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:46.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:46.994][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-07-06 16:04:46.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:46.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:46.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.019][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:47.020][private$selectFields]
biodb.TRACE[2024-07-06 16:04:47.021][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:47.023][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:47.024][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:47.025][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.027][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.029][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.030][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.032][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.034][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.036][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:47.037][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:47.038][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.042][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.043][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:47.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.060][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-07-06 16:04:47.062][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:47.063][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:47.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:47.081][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:47.086][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:04:47.087][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a985300ab8a01d49254fbf993ad91279".
biodb.TRACE[2024-07-06 16:04:47.089][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:04:47.091][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.content".
biodb.DEBUG[2024-07-06 16:04:47.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.151][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.179][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.849][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.902][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:47.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:47.908][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:47.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.935][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:47.937][private$selectFields]
biodb.TRACE[2024-07-06 16:04:47.938][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:47.939][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:47.940][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:47.941][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.945][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.946][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.948][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.950][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.951][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:47.953][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:47.954][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.955][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.958][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.959][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:47.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.976][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-07-06 16:04:47.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:47.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:47.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:47.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:47.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:47.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:47.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:47.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:47.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:47.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:47.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.002][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:48.004][private$selectFields]
biodb.TRACE[2024-07-06 16:04:48.005][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:48.006][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:48.007][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:48.009][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.010][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.013][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.014][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.015][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.018][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.019][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:48.020][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:48.022][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.023][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.025][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.027][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:48.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.044][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-07-06 16:04:48.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:48.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:48.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:48.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:48.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:48.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:48.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:48.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.069][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:48.070][private$selectFields]
biodb.TRACE[2024-07-06 16:04:48.071][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:48.072][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:48.073][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:48.074][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.076][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.078][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.086][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.087][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.090][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.091][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:48.093][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:48.094][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.095][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.098][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.099][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:48.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:48.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.115][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-07-06 16:04:48.116][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:48.117][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-06 16:04:48.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:48.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:48.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:48.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:48.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:48.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:48.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:48.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:48.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:48.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:48.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:48.220][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:48.224][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:48.226][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:48.228][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:04:48.613][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:04:49.179][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:49.182][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content"
biodb.TRACE[2024-07-06 16:04:49.188][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.request"
biodb.DEBUG[2024-07-06 16:04:49.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:49.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:49.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:49.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:49.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:49.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:49.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:49.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:49.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:49.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:49.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:49.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:49.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:49.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:49.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:49.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:49.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:49.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:49.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:49.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:49.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:49.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:49.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:49.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:49.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:49.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:49.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:49.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:49.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:49.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:49.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:49.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:49.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:49.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:49.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:49.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:49.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:49.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:49.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:49.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:49.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:49.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:49.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:49.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:49.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:49.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:49.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:49.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:49.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:49.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:49.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:49.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:49.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:49.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:49.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:49.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:49.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:49.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:49.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:49.360][private$loadEntries] Creating entries from ids [1]: "9442".
biodb.DEBUG[2024-07-06 16:04:49.361][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:49.363][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9442".
biodb.TRACE[2024-07-06 16:04:49.365][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:49.366][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:49.368][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:49.369][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:49.370][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:49.371][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:49.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:49.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:49.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:49.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:49.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:49.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:49.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:49.390][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442".
biodb.DEBUG[2024-07-06 16:04:49.394][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:49.395][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:49.397][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442".
biodb.TRACE[2024-07-06 16:04:49.770][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442).
biodb.DEBUG[2024-07-06 16:04:50.153][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:50.156][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7d1576b26aed79f4c1d758a3f87c749b.content"
biodb.TRACE[2024-07-06 16:04:50.161][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7d1576b26aed79f4c1d758a3f87c749b.request"
biodb.TRACE[2024-07-06 16:04:50.164][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9442.xml"
biodb.DEBUG[2024-07-06 16:04:50.166][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:50.167][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:50.169][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:50.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:50.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:50.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:50.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:50.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:50.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:50.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:50.186][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:50.187][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:50.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.190][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:50.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:50.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.196][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:50.198][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:50.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.200][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.202][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:50.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:50.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.207][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:50.208][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:50.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.210][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.212][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:50.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:50.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.230][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:50.232][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:50.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.234][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:50.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:50.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.242][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:50.243][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:50.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.245][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:50.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:50.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.252][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:50.253][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:50.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.256][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.257][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:50.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:50.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.262][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:50.264][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:50.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.266][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.267][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:50.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:50.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.273][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:50.274][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:50.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.276][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:50.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:50.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.283][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:50.284][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:50.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.286][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:50.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:50.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.293][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:50.295][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:50.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.297][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.299][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:50.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:50.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.304][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:50.305][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:50.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.307][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.309][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:50.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:50.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:50.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:50.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:50.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:50.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:50.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:50.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:50.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:50.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:50.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:50.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:50.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:50.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:50.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:50.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:50.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:50.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:50.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:50.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:50.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:50.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:50.366][self$createEntryFromContent] Accession numbers: 9442.
biodb.TRACE[2024-07-06 16:04:50.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:50.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:50.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:50.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:50.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:50.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:50.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:50.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:50.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:50.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:50.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:50.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:50.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:50.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:50.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:50.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:50.395][private$loadEntries] Creating entries from ids [1]: "34764".
biodb.DEBUG[2024-07-06 16:04:50.396][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:50.398][cch$loadFileContent] Trying to load 1 files from cache: [1]: "34764".
biodb.TRACE[2024-07-06 16:04:50.400][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:50.401][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:50.402][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:50.404][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:50.405][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:50.406][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:50.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:50.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:50.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:50.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:50.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:50.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:50.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:50.423][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764".
biodb.DEBUG[2024-07-06 16:04:50.426][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:50.427][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:50.429][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764".
biodb.TRACE[2024-07-06 16:04:50.802][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764).
biodb.DEBUG[2024-07-06 16:04:51.192][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:51.194][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a38508ac0dc37ed2da31f7bda33ae97f.content"
biodb.TRACE[2024-07-06 16:04:51.199][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a38508ac0dc37ed2da31f7bda33ae97f.request"
biodb.TRACE[2024-07-06 16:04:51.202][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34764.xml"
biodb.DEBUG[2024-07-06 16:04:51.204][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:51.206][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:51.207][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:51.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:51.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:51.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:51.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:51.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:51.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:51.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:51.224][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:51.226][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:51.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.228][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:51.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:51.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.235][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:51.236][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:51.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.238][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.240][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:51.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:51.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.245][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:51.246][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:51.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.249][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.250][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:51.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:51.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.255][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:51.257][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:51.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.259][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:51.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:51.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.266][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:51.267][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:51.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.270][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:51.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:51.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.277][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:51.279][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:51.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.281][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.283][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:51.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:51.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.288][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:51.289][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:51.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.291][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.293][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:51.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:51.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.298][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:51.300][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:51.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.302][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:51.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:51.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.309][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:51.310][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:51.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.312][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:51.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:51.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.320][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:51.322][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:51.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.324][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.326][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:51.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:51.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.331][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:51.332][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:51.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.334][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.336][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:51.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:51.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:51.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:51.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:51.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:51.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:51.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:51.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:51.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:51.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:51.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:51.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:51.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:51.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:51.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:51.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:51.392][self$createEntryFromContent] Accession numbers: 34764.
biodb.TRACE[2024-07-06 16:04:51.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:51.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:51.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:51.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:51.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:51.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:51.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:51.437][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:51.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:51.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:51.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:51.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:51.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:51.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:51.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:51.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.462][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:51.464][private$selectFields]
biodb.TRACE[2024-07-06 16:04:51.465][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:51.466][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:51.467][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:51.468][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.470][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.472][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.473][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.474][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.477][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.478][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:51.479][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:51.480][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.482][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.484][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.485][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:51.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.501][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-07-06 16:04:51.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:51.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:51.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:51.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:51.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:51.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:51.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:51.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.525][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:51.526][private$selectFields]
biodb.TRACE[2024-07-06 16:04:51.527][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:51.529][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:51.530][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:51.531][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.532][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.535][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.536][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.537][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.540][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.541][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:51.542][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:51.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.547][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.548][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:51.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.564][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-07-06 16:04:51.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:51.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:51.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:51.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:51.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:51.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:51.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:51.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.589][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:51.590][private$selectFields]
biodb.TRACE[2024-07-06 16:04:51.592][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:51.593][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:51.594][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:51.595][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.597][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.599][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.600][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.602][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.604][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.605][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:51.607][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:51.608][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.612][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.613][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:51.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:51.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:51.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:51.630][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [34764].
biodb.DEBUG[2024-07-06 16:04:51.631][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:51.632][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:51.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:51.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:51.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:51.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:51.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:51.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:51.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:51.650][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:51.655][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:51.656][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:51.659][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:04:52.049][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:04:52.604][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:52.606][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.content"
biodb.TRACE[2024-07-06 16:04:52.612][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.request"
biodb.DEBUG[2024-07-06 16:04:52.621][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:52.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:52.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:52.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:52.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:52.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:52.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:52.635][private$loadEntries] Creating entries from ids [1]: "2535".
biodb.DEBUG[2024-07-06 16:04:52.636][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:52.638][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2535".
biodb.TRACE[2024-07-06 16:04:52.640][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:52.641][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:52.642][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:52.644][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:52.645][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:52.646][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:52.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:52.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:52.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:52.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:52.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:52.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:52.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:52.663][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535".
biodb.DEBUG[2024-07-06 16:04:52.667][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:52.668][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:52.670][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535".
biodb.TRACE[2024-07-06 16:04:53.044][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535).
biodb.DEBUG[2024-07-06 16:04:53.419][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:53.422][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e1d9514645c3005d4e4f643b2d18f099.content"
biodb.TRACE[2024-07-06 16:04:53.427][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e1d9514645c3005d4e4f643b2d18f099.request"
biodb.TRACE[2024-07-06 16:04:53.430][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2535.xml"
biodb.DEBUG[2024-07-06 16:04:53.432][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:53.434][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:53.436][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:53.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:53.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:53.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:53.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:53.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:53.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:53.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:53.455][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:53.457][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:53.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.459][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:53.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:53.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.466][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:53.467][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:53.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.469][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.471][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:53.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:53.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.476][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:53.478][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:53.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.480][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.482][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:53.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:53.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.487][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:53.488][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:53.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.491][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:53.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:53.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.499][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:53.500][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:53.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.503][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:53.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:53.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.510][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:53.512][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:53.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.514][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.516][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:53.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:53.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.521][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:53.522][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:53.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.525][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.527][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:53.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:53.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.532][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.533][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.536][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.556][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:53.557][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:53.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.560][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.561][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:53.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:53.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.567][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:53.568][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:53.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.570][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.572][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:53.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:53.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.577][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:53.579][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:53.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.581][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.583][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:53.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:53.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:53.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:53.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:53.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:53.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:53.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:53.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:53.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:53.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:53.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:53.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:53.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:53.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:53.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:53.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:53.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:53.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:53.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:53.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:53.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:53.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:53.642][self$createEntryFromContent] Accession numbers: 2535.
biodb.TRACE[2024-07-06 16:04:53.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:53.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:53.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:53.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:53.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:53.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:53.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:53.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:53.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:53.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:53.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:53.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:53.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:53.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:53.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:53.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:53.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:53.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:53.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:53.701][private$loadEntries] Creating entries from ids [1]: "5525".
biodb.DEBUG[2024-07-06 16:04:53.702][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:53.704][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5525".
biodb.TRACE[2024-07-06 16:04:53.705][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:53.707][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:53.708][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:53.709][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:53.711][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:53.712][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:53.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:53.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:53.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:53.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:53.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:53.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:53.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:53.728][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525".
biodb.DEBUG[2024-07-06 16:04:53.732][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:53.734][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:53.735][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525".
biodb.TRACE[2024-07-06 16:04:54.109][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525).
biodb.DEBUG[2024-07-06 16:04:54.477][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:54.479][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8c1563abc6b93d34a6b6b66375881583.content"
biodb.TRACE[2024-07-06 16:04:54.484][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8c1563abc6b93d34a6b6b66375881583.request"
biodb.TRACE[2024-07-06 16:04:54.487][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5525.xml"
biodb.DEBUG[2024-07-06 16:04:54.489][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:54.491][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:54.492][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:54.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:54.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:54.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:54.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:54.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:54.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:54.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:54.509][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:54.511][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:54.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.513][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:54.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:54.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.520][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:54.521][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:54.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.524][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.525][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:54.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:54.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.530][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:54.532][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:54.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.534][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.536][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:54.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:54.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.541][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:54.542][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:54.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.544][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:54.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:54.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.551][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:54.552][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:54.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.555][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.556][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:54.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:54.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.562][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:54.563][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:54.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.565][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.567][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:54.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:54.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.572][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:54.573][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:54.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.576][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.577][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:54.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:54.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.583][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.584][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.586][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.593][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:54.594][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:54.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.597][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.599][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:54.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:54.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.604][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:54.605][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:54.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.608][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.609][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:54.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:54.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.614][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:54.616][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:54.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.618][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.620][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:54.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:54.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:54.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:54.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:54.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:54.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:54.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:54.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:54.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:54.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:54.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:54.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:54.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:54.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:54.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:54.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:54.676][self$createEntryFromContent] Accession numbers: 5525.
biodb.TRACE[2024-07-06 16:04:54.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:54.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:54.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:54.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:54.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:54.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:54.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:54.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:54.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:54.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:54.732][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:54.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:54.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:54.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:54.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:54.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:54.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:54.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:54.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.758][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:54.759][private$selectFields]
biodb.TRACE[2024-07-06 16:04:54.760][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:54.761][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:54.763][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:54.764][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.765][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.768][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.772][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.774][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:54.775][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:54.776][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.778][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.780][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.781][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:54.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.798][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [2535].
biodb.DEBUG[2024-07-06 16:04:54.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:54.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:54.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:54.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:54.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:54.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:54.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:54.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.823][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:54.824][private$selectFields]
biodb.TRACE[2024-07-06 16:04:54.826][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:54.827][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:54.828][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:54.829][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.831][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.832][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.834][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.835][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.837][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.839][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.840][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:54.842][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:54.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.847][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.848][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:54.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.865][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:04:54.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:54.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:54.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:54.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:54.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:54.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:54.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:54.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.894][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:54.895][private$selectFields]
biodb.TRACE[2024-07-06 16:04:54.896][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:04:54.897][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:04:54.899][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:54.900][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.901][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.904][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.905][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.907][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.909][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.911][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:54.912][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:04:54.913][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.917][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.918][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:04:54.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:54.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:54.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:54.936][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-07-06 16:04:54.937][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:04:54.938][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:04:54.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:54.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:54.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:54.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:54.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:54.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:54.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:54.956][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:04:54.961][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:54.962][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:54.965][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:04:55.337][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:04:55.810][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:55.813][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.content"
biodb.TRACE[2024-07-06 16:04:55.818][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.request"
biodb.DEBUG[2024-07-06 16:04:55.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:55.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:55.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:55.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:55.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:55.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:55.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:55.835][private$loadEntries] Creating entries from ids [1]: "31303".
biodb.DEBUG[2024-07-06 16:04:55.836][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:55.838][cch$loadFileContent] Trying to load 1 files from cache: [1]: "31303".
biodb.TRACE[2024-07-06 16:04:55.840][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:55.841][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:55.843][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:55.844][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:55.845][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:55.846][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:55.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:55.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:55.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:55.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:55.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:55.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:55.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:55.863][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303".
biodb.DEBUG[2024-07-06 16:04:55.867][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:55.868][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:55.870][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303".
biodb.TRACE[2024-07-06 16:04:56.255][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303).
biodb.DEBUG[2024-07-06 16:04:56.673][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:56.676][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/99089a071b7e4bcfb0ef9a12b49b39b2.content"
biodb.TRACE[2024-07-06 16:04:56.681][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/99089a071b7e4bcfb0ef9a12b49b39b2.request"
biodb.TRACE[2024-07-06 16:04:56.684][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/31303.xml"
biodb.DEBUG[2024-07-06 16:04:56.686][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:56.688][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:56.689][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:56.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:56.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:56.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:56.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:56.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:56.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:56.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:56.705][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:56.707][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:56.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.709][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:56.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:56.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.716][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:56.717][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:56.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.723][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.724][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:56.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:56.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.730][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:56.731][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:56.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.734][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.735][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:56.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:56.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.740][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:56.742][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:56.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.744][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:56.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:56.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.758][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:56.760][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:56.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.762][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.765][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:56.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:56.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.770][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:56.772][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:56.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.774][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.776][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:56.777][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:56.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.779][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.781][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:56.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:56.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.786][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:56.787][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:56.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.790][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:56.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:56.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.796][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:56.798][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:56.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.800][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.814][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:56.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:56.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.820][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:56.821][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:56.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.823][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.825][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:56.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:56.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.830][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:56.832][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:56.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.834][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.836][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:56.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:56.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:56.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:56.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:56.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:56.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:56.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:56.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:56.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:56.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:56.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:56.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:56.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:56.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:56.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:56.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:56.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:56.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:56.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:56.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:56.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:56.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:56.891][self$createEntryFromContent] Accession numbers: 31303.
biodb.TRACE[2024-07-06 16:04:56.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:56.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:56.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:56.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:56.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:56.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:56.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:56.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:56.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:56.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:56.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:56.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:56.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:56.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:56.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:56.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:56.919][private$loadEntries] Creating entries from ids [1]: "37118".
biodb.DEBUG[2024-07-06 16:04:56.921][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:56.923][cch$loadFileContent] Trying to load 1 files from cache: [1]: "37118".
biodb.TRACE[2024-07-06 16:04:56.924][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:56.926][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:56.927][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:56.928][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:56.929][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:56.931][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:56.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:56.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:56.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:56.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:56.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:56.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:56.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:56.947][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118".
biodb.DEBUG[2024-07-06 16:04:56.951][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:56.952][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:56.954][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118".
biodb.TRACE[2024-07-06 16:04:57.330][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118).
biodb.DEBUG[2024-07-06 16:04:57.699][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:57.701][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37e09c6197385dffaf0a241198ec6309.content"
biodb.TRACE[2024-07-06 16:04:57.706][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37e09c6197385dffaf0a241198ec6309.request"
biodb.TRACE[2024-07-06 16:04:57.709][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37118.xml"
biodb.DEBUG[2024-07-06 16:04:57.711][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:57.712][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:57.713][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:57.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:57.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:57.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:57.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:57.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:57.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:57.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:57.730][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:57.731][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:57.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.733][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:57.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:57.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.740][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:57.741][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:57.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.744][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.746][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:57.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:57.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.751][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:57.752][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:57.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.754][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.756][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:57.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:57.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.761][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:57.762][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:57.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.765][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.766][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:57.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:57.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.771][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:57.772][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:57.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.775][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:57.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:57.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.781][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:57.783][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:57.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.785][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.786][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:57.788][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:57.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.790][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.792][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:57.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:57.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.797][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:57.798][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:57.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.800][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:57.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:57.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.807][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:57.808][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:57.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.810][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.812][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:57.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:57.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.817][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:57.818][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:57.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.821][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.822][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:57.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:57.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.828][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:57.829][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:57.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.831][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.833][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:57.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:57.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:57.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:57.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:57.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:57.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:57.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:57.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:57.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:57.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:57.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:57.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:57.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:57.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:57.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:57.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:57.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:57.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:57.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:57.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:57.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:57.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:57.889][self$createEntryFromContent] Accession numbers: 37118.
biodb.TRACE[2024-07-06 16:04:57.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:57.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:57.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:57.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:57.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:57.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:57.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:57.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:57.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:57.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:57.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:57.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:57.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:57.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:57.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:57.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:57.919][private$loadEntries] Creating entries from ids [1]: "39424".
biodb.DEBUG[2024-07-06 16:04:57.920][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:57.922][cch$loadFileContent] Trying to load 1 files from cache: [1]: "39424".
biodb.TRACE[2024-07-06 16:04:57.924][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:57.925][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:57.927][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:57.928][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:57.929][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:57.930][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:57.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:57.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:57.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:57.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:57.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:57.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:57.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:57.947][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424".
biodb.DEBUG[2024-07-06 16:04:57.951][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:57.952][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:57.954][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424".
biodb.TRACE[2024-07-06 16:04:58.322][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424).
biodb.DEBUG[2024-07-06 16:04:58.701][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:58.704][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/da5bac251de02a0ce66c3d69c0d59bb8.content"
biodb.TRACE[2024-07-06 16:04:58.708][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/da5bac251de02a0ce66c3d69c0d59bb8.request"
biodb.TRACE[2024-07-06 16:04:58.719][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/39424.xml"
biodb.DEBUG[2024-07-06 16:04:58.728][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:58.730][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:58.731][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:58.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:58.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:58.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:58.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:58.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:58.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:58.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:58.749][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:58.750][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:58.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.753][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:58.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:58.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.760][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:58.761][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:58.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.763][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.765][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:58.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:58.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.770][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:58.771][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:58.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.774][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.775][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:58.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:58.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.781][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:58.782][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:58.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.784][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.786][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:58.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:58.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.791][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:58.793][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:58.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.795][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:58.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:58.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.803][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:58.804][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:58.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.807][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.809][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:58.810][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:58.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.813][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.814][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:58.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:58.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.819][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:58.821][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:58.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.823][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:58.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:58.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.830][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:58.831][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:58.832][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.833][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.835][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:58.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:58.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.840][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:58.841][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:58.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.844][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.845][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:58.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:58.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.850][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:58.852][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:58.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.854][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.855][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:58.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:58.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:58.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:58.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:58.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:58.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:58.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:58.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:58.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:58.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:58.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:58.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:58.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:58.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:58.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:58.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:58.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:58.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:58.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:58.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:58.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:58.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:58.910][self$createEntryFromContent] Accession numbers: 39424.
biodb.TRACE[2024-07-06 16:04:58.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:58.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:58.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:58.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:58.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:58.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:58.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:58.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:58.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:58.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:58.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:58.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:58.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:58.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:58.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:58.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:58.939][private$loadEntries] Creating entries from ids [1]: "81767".
biodb.DEBUG[2024-07-06 16:04:58.940][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:04:58.942][cch$loadFileContent] Trying to load 1 files from cache: [1]: "81767".
biodb.TRACE[2024-07-06 16:04:58.943][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:04:58.945][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:04:58.946][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:04:58.947][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:04:58.948][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:04:58.950][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:04:58.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:58.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:58.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:58.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:58.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:58.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:58.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:04:58.966][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767".
biodb.DEBUG[2024-07-06 16:04:58.969][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:04:58.971][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:04:58.972][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767".
biodb.TRACE[2024-07-06 16:04:59.345][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767).
biodb.DEBUG[2024-07-06 16:04:59.720][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:04:59.722][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6d9dc9192959d977e17745ebfa06bb73.content"
biodb.TRACE[2024-07-06 16:04:59.727][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6d9dc9192959d977e17745ebfa06bb73.request"
biodb.TRACE[2024-07-06 16:04:59.731][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/81767.xml"
biodb.DEBUG[2024-07-06 16:04:59.733][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:04:59.734][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:04:59.736][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:04:59.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:59.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:59.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:59.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:59.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:59.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:59.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:59.753][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:59.754][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:59.755][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.756][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:59.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:59.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.763][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:59.764][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:59.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.767][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.768][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:04:59.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:04:59.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.774][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:59.775][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:59.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.778][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.779][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:04:59.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:04:59.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.784][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:59.786][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:59.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.788][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.790][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:04:59.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:04:59.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.795][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:59.796][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:59.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.799][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.800][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:04:59.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:04:59.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.805][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:59.807][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:59.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.809][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.811][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:59.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:04:59.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.816][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:59.817][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:59.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.819][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.821][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:04:59.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:04:59.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.826][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.828][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.830][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.837][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:59.838][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:59.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.841][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.843][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:04:59.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:04:59.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.848][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:59.849][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:59.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.852][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.853][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:04:59.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:04:59.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.858][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:59.860][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:59.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.862][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.863][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:04:59.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:04:59.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:59.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:59.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:59.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:59.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:59.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:59.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:59.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:59.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:59.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:59.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:59.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:59.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:59.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:59.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:59.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:59.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:59.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:59.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:04:59.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:04:59.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:59.929][self$createEntryFromContent] Accession numbers: 81767.
biodb.TRACE[2024-07-06 16:04:59.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:59.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:59.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:59.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:59.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:59.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:59.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:59.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:59.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:04:59.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:04:59.973][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:04:59.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:04:59.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:04:59.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:04:59.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:04:59.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:04:59.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:04:59.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:04:59.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:59.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:59.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:04:59.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:04:59.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:04:59.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:04:59.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.000][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.001][private$selectFields]
biodb.TRACE[2024-07-06 16:05:00.002][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:00.003][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:00.005][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.006][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.007][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.010][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.011][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.012][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.015][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.016][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.017][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.020][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.022][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.024][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:00.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.040][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [31303].
biodb.DEBUG[2024-07-06 16:05:00.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.065][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.066][private$selectFields]
biodb.TRACE[2024-07-06 16:05:00.067][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:00.068][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:00.069][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.071][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.072][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.074][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.075][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.077][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.079][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.081][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.082][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.083][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.085][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.087][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.088][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:00.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.105][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [81767].
biodb.DEBUG[2024-07-06 16:05:00.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.130][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.131][private$selectFields]
biodb.TRACE[2024-07-06 16:05:00.133][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:00.134][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:00.135][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.136][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.138][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.140][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.143][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.145][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.146][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.148][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.149][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.150][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.152][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.154][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:00.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.171][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [131378].
biodb.DEBUG[2024-07-06 16:05:00.172][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:00.173][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:00.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:00.216][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:00.220][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:00.222][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-06 16:05:00.224][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:00.225][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-06 16:05:00.229][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:00.234][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:00.235][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-06 16:05:00.237][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:00.239][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-06 16:05:00.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:00.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:00.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.313][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:00.342][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:00.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.368][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.369][private$selectFields]
biodb.TRACE[2024-07-06 16:05:00.370][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:00.371][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:00.372][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.374][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.375][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.377][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.379][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.380][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.382][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.383][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.385][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.386][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.387][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.390][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.391][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:00.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.407][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-06 16:05:00.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.432][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.433][private$selectFields]
biodb.TRACE[2024-07-06 16:05:00.435][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:00.436][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:00.437][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.438][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.440][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.442][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.443][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.445][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.447][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.448][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.450][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.451][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.452][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.455][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.456][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:00.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.473][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:05:00.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.498][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.499][private$selectFields]
biodb.TRACE[2024-07-06 16:05:00.500][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:00.501][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:00.502][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.504][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.505][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.508][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.510][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.511][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.514][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.515][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.516][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.517][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.519][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.521][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.522][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:00.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.539][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-06 16:05:00.540][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:00.542][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:00.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:00.559][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:00.564][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:00.565][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-07-06 16:05:00.567][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:00.568][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-07-06 16:05:00.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:00.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:00.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:00.656][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:00.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.682][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.683][private$selectFields]
biodb.TRACE[2024-07-06 16:05:00.685][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:00.686][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:00.687][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.688][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.690][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.692][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.693][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.695][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.697][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.699][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.700][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.701][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.703][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.705][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.706][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:00.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.724][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:05:00.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.734][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.757][private$selectFields]
biodb.TRACE[2024-07-06 16:05:00.758][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:00.759][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:00.760][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.762][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.763][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.765][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.767][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.768][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.770][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.772][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.773][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.774][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.776][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.778][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.779][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:00.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.797][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-07-06 16:05:00.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.822][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.823][private$selectFields]
biodb.TRACE[2024-07-06 16:05:00.824][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:00.825][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:00.826][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.828][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.829][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.831][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.833][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.834][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.836][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.866][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.867][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:00.868][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.870][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.872][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.873][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:00.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:00.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.890][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-07-06 16:05:00.891][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:00.893][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:00.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:00.911][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:00.915][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:00.917][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-07-06 16:05:00.918][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:00.920][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-07-06 16:05:00.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:00.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:00.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:00.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:00.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:00.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:00.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:00.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:00.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:00.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:00.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:00.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:00.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:01.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:01.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:01.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:01.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:01.012][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:01.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:01.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:01.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:01.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:01.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:01.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:01.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:01.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.037][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:01.039][private$selectFields]
biodb.TRACE[2024-07-06 16:05:01.040][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:01.041][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:01.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:01.043][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.045][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.046][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.047][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.049][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.050][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.052][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.054][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:01.055][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:01.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.058][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.060][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.061][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:01.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.078][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-07-06 16:05:01.079][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:01.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:01.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:01.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:01.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:01.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:01.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:01.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.102][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:01.103][private$selectFields]
biodb.TRACE[2024-07-06 16:05:01.104][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:01.106][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:01.107][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:01.108][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.109][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.112][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.113][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.114][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.117][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.118][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:01.119][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:01.120][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.124][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.125][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:01.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.142][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-07-06 16:05:01.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:01.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:01.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:01.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:01.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:01.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:01.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:01.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.167][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:01.169][private$selectFields]
biodb.TRACE[2024-07-06 16:05:01.170][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:01.171][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:01.172][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:01.173][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.175][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.177][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.178][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.180][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.182][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.183][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:01.185][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:01.186][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.190][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.191][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:01.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:01.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:01.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:01.214][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2024-07-06 16:05:01.216][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:01.217][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:01.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:01.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:01.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:01.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:01.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:01.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:01.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:01.258][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:01.263][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:01.264][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:01.267][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:05:01.656][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:05:02.031][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:02.034][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.content"
biodb.TRACE[2024-07-06 16:05:02.039][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.request"
biodb.DEBUG[2024-07-06 16:05:02.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:02.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:02.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:02.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:02.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:02.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:02.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:02.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:02.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:02.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:02.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:02.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:02.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:02.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:02.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:02.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:02.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:02.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:02.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:02.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:02.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:02.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:02.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:02.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:02.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:02.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:02.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:02.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:02.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:02.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:02.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:02.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:02.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:02.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:02.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:02.116][private$loadEntries] Creating entries from ids [1]: "17813".
biodb.DEBUG[2024-07-06 16:05:02.117][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:02.119][cch$loadFileContent] Trying to load 1 files from cache: [1]: "17813".
biodb.TRACE[2024-07-06 16:05:02.121][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:02.122][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:02.123][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:02.125][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:02.126][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:02.127][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:02.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:02.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:02.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:02.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:02.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:02.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:02.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:02.144][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813".
biodb.DEBUG[2024-07-06 16:05:02.147][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:02.149][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:02.150][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813".
biodb.TRACE[2024-07-06 16:05:02.525][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813).
biodb.DEBUG[2024-07-06 16:05:02.899][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:02.901][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62f7e1534a05c51cc1431eff021df0bd.content"
biodb.TRACE[2024-07-06 16:05:02.906][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62f7e1534a05c51cc1431eff021df0bd.request"
biodb.TRACE[2024-07-06 16:05:02.909][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/17813.xml"
biodb.DEBUG[2024-07-06 16:05:02.911][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:02.912][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:02.914][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:02.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:02.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:02.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:02.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:02.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:02.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:02.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:02.932][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:02.933][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:02.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.936][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:02.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:02.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.944][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:02.945][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:02.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.948][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.949][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:02.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:02.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.955][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:02.956][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:02.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.959][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.961][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:02.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:02.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.967][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:02.969][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:02.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.973][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.976][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:02.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:02.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.985][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:02.987][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:02.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:02.991][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:02.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:02.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:02.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.004][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:03.007][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:03.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.011][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.014][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:03.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:03.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.023][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:03.026][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:03.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.029][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.032][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:03.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:03.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.041][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:03.043][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:03.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.048][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:03.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:03.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.056][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:03.057][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:03.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.059][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.061][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:03.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:03.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.067][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:03.069][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:03.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.072][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.075][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:03.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:03.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.085][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:03.087][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:03.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.092][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.095][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:03.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:03.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:03.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:03.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:03.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:03.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:03.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:03.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:03.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:03.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:03.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:03.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:03.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:03.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:03.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:03.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:03.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:03.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:03.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:03.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:03.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:03.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:03.196][self$createEntryFromContent] Accession numbers: 17813.
biodb.TRACE[2024-07-06 16:05:03.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:03.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:03.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:03.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:03.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:03.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:03.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:03.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:03.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:03.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:03.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:03.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:03.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:03.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:03.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:03.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:03.236][private$loadEntries] Creating entries from ids [1]: "30109".
biodb.DEBUG[2024-07-06 16:05:03.238][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:03.254][cch$loadFileContent] Trying to load 1 files from cache: [1]: "30109".
biodb.TRACE[2024-07-06 16:05:03.256][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:03.258][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:03.259][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:03.261][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:03.262][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:03.263][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:03.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:03.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:03.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:03.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:03.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:03.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:03.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:03.281][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109".
biodb.DEBUG[2024-07-06 16:05:03.284][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:03.286][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:03.288][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109".
biodb.TRACE[2024-07-06 16:05:03.676][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109).
biodb.DEBUG[2024-07-06 16:05:04.072][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:04.077][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8ed09c4c418a18a426e08dad5ae6a3f9.content"
biodb.TRACE[2024-07-06 16:05:04.084][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8ed09c4c418a18a426e08dad5ae6a3f9.request"
biodb.TRACE[2024-07-06 16:05:04.091][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/30109.xml"
biodb.DEBUG[2024-07-06 16:05:04.095][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:04.098][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:04.101][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:04.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:04.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:04.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:04.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:04.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:04.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:04.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:04.131][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:04.134][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:04.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.138][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:04.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:04.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.148][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:04.150][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:04.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.154][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.156][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:04.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:04.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.164][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:04.165][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:04.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.168][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.170][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:04.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:04.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.178][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:04.180][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:04.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.182][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.184][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:04.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:04.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.189][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:04.190][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:04.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.192][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:04.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:04.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.199][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:04.200][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:04.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.203][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.204][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:04.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:04.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.209][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:04.210][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:04.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.213][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.214][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:04.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:04.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.219][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:04.220][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:04.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.223][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:04.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:04.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.229][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:04.231][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:04.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.233][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.235][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:04.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:04.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.240][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:04.241][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:04.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.243][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.245][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:04.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:04.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.250][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:04.251][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:04.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.253][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.255][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:04.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:04.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:04.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:04.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:04.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:04.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:04.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:04.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:04.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:04.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:04.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:04.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:04.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:04.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:04.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:04.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:04.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:04.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:04.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:04.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:04.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:04.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:04.309][self$createEntryFromContent] Accession numbers: 30109.
biodb.TRACE[2024-07-06 16:05:04.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:04.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:04.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:04.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:04.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:04.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:04.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:04.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:04.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:04.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:04.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:04.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:04.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:04.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:04.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:04.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:04.338][private$loadEntries] Creating entries from ids [1]: "33275".
biodb.DEBUG[2024-07-06 16:05:04.340][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:04.342][cch$loadFileContent] Trying to load 1 files from cache: [1]: "33275".
biodb.TRACE[2024-07-06 16:05:04.343][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:04.345][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:04.346][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:04.347][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:04.349][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:04.350][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:04.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:04.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:04.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:04.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:04.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:04.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:04.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:04.367][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275".
biodb.DEBUG[2024-07-06 16:05:04.370][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:04.372][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:04.373][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275".
biodb.TRACE[2024-07-06 16:05:04.745][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275).
biodb.DEBUG[2024-07-06 16:05:05.117][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:05.120][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7b5440dd739854267ce8eafb6ea36b1.content"
biodb.TRACE[2024-07-06 16:05:05.125][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7b5440dd739854267ce8eafb6ea36b1.request"
biodb.TRACE[2024-07-06 16:05:05.128][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/33275.xml"
biodb.DEBUG[2024-07-06 16:05:05.130][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:05.131][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:05.133][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:05.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:05.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:05.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:05.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:05.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:05.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:05.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:05.149][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:05.151][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:05.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.153][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:05.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:05.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.160][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:05.161][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:05.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.163][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.165][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:05.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:05.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.170][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:05.171][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:05.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.174][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.175][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:05.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:05.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.180][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:05.182][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:05.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.184][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:05.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:05.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.191][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:05.192][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:05.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.194][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:05.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:05.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.201][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:05.202][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:05.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.205][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.206][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:05.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:05.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.211][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:05.213][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:05.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.215][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.217][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:05.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:05.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.222][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:05.223][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:05.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.225][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:05.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:05.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.245][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:05.246][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:05.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.249][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.251][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:05.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:05.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.256][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:05.258][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:05.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.260][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.262][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:05.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:05.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.267][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:05.268][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:05.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.271][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.272][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:05.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:05.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:05.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:05.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:05.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:05.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:05.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:05.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:05.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:05.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:05.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:05.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:05.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:05.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:05.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:05.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:05.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:05.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:05.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:05.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:05.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:05.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:05.328][self$createEntryFromContent] Accession numbers: 33275.
biodb.TRACE[2024-07-06 16:05:05.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:05.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:05.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:05.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:05.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:05.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:05.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:05.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:05.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:05.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:05.346][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:05.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:05.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:05.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:05.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:05.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:05.359][private$loadEntries] Creating entries from ids [1]: "33277".
biodb.DEBUG[2024-07-06 16:05:05.360][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:05.362][cch$loadFileContent] Trying to load 1 files from cache: [1]: "33277".
biodb.TRACE[2024-07-06 16:05:05.364][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:05.365][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:05.367][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:05.368][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:05.369][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:05.370][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:05.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:05.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:05.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:05.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:05.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:05.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:05.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:05.388][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277".
biodb.DEBUG[2024-07-06 16:05:05.391][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:05.393][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:05.394][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277".
biodb.TRACE[2024-07-06 16:05:05.774][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277).
biodb.DEBUG[2024-07-06 16:05:06.146][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:06.148][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9e077bb25f478950bf1d29f1e643c2aa.content"
biodb.TRACE[2024-07-06 16:05:06.153][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9e077bb25f478950bf1d29f1e643c2aa.request"
biodb.TRACE[2024-07-06 16:05:06.156][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/33277.xml"
biodb.DEBUG[2024-07-06 16:05:06.158][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:06.160][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:06.161][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:06.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:06.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:06.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:06.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:06.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:06.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:06.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:06.178][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:06.180][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:06.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.182][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:06.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:06.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.188][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:06.190][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:06.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.192][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.194][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:06.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:06.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.199][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:06.200][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:06.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.203][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.204][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:06.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:06.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.209][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:06.211][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:06.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.213][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:06.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:06.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.220][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:06.222][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:06.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.224][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.225][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:06.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:06.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.231][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:06.232][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:06.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.235][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.236][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:06.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:06.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.242][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:06.243][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:06.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.245][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.247][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:06.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:06.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.252][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:06.254][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:06.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.256][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:06.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:06.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.263][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:06.264][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:06.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.266][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.268][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:06.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:06.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.273][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:06.274][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:06.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.277][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.278][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:06.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:06.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.283][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:06.284][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:06.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.287][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.288][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:06.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:06.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:06.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:06.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:06.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:06.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:06.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:06.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:06.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:06.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:06.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:06.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:06.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:06.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:06.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:06.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:06.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:06.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:06.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:06.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:06.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:06.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:06.344][self$createEntryFromContent] Accession numbers: 33277.
biodb.TRACE[2024-07-06 16:05:06.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:06.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:06.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:06.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:06.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:06.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:06.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:06.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:06.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:06.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:06.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:06.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:06.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:06.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:06.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:06.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:06.375][private$loadEntries] Creating entries from ids [1]: "52421".
biodb.DEBUG[2024-07-06 16:05:06.376][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:06.378][cch$loadFileContent] Trying to load 1 files from cache: [1]: "52421".
biodb.TRACE[2024-07-06 16:05:06.379][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:06.381][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:06.382][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:06.383][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:06.385][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:06.386][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:06.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:06.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:06.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:06.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:06.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:06.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:06.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:06.403][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421".
biodb.DEBUG[2024-07-06 16:05:06.415][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:06.417][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:06.419][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421".
biodb.TRACE[2024-07-06 16:05:06.890][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421).
biodb.DEBUG[2024-07-06 16:05:07.268][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:07.270][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66d999f05cd47f00d9f023cd227b9481.content"
biodb.TRACE[2024-07-06 16:05:07.275][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66d999f05cd47f00d9f023cd227b9481.request"
biodb.TRACE[2024-07-06 16:05:07.279][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52421.xml"
biodb.DEBUG[2024-07-06 16:05:07.281][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:07.282][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:07.284][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:07.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:07.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:07.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:07.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:07.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:07.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:07.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:07.301][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:07.302][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:07.303][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.305][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:07.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:07.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.312][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:07.313][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:07.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.317][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:07.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:07.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.322][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:07.324][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:07.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.326][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.327][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:07.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:07.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.333][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:07.334][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:07.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.336][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:07.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:07.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.343][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:07.345][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:07.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.347][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.349][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:07.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:07.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.354][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:07.355][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:07.356][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.357][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.359][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:07.360][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:07.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.363][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.365][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:07.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:07.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.370][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.371][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.374][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.380][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:07.382][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:07.383][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.384][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.386][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:07.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:07.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.391][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:07.393][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:07.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.395][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.397][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:07.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:07.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.402][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:07.404][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:07.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.406][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.408][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:07.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:07.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:07.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:07.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:07.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:07.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:07.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:07.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:07.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:07.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:07.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:07.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:07.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:07.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:07.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:07.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:07.466][self$createEntryFromContent] Accession numbers: 52421.
biodb.TRACE[2024-07-06 16:05:07.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:07.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:07.483][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:07.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:07.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:07.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:07.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:07.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:07.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:07.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:07.510][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:07.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:07.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:07.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:07.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:07.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:07.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:07.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:07.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.536][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:07.537][private$selectFields]
biodb.TRACE[2024-07-06 16:05:07.538][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:07.539][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:07.541][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:07.542][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.546][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.547][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.548][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.551][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.552][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:07.553][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:07.554][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.556][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.558][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.559][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:07.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.576][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-06 16:05:07.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:07.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:07.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:07.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:07.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:07.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:07.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:07.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.601][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:07.602][private$selectFields]
biodb.TRACE[2024-07-06 16:05:07.603][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:07.604][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:07.605][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:07.607][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.608][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.610][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.612][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.613][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.615][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.617][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:07.618][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:07.619][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.621][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.623][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.624][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:07.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.641][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:05:07.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:07.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:07.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:07.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:07.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:07.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:07.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:07.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.666][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:07.667][private$selectFields]
biodb.TRACE[2024-07-06 16:05:07.668][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:07.669][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:07.671][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:07.672][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.673][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.685][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.686][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.688][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.690][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.691][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:07.692][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:07.694][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.695][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.697][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.698][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:07.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:07.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:07.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:07.739][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-06 16:05:07.740][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:07.741][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:07.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:07.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:07.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:07.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:07.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:07.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:07.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:07.759][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:07.763][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:07.765][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:07.767][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-06 16:05:08.149][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-06 16:05:08.708][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:08.711][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.content"
biodb.TRACE[2024-07-06 16:05:08.716][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.request"
biodb.DEBUG[2024-07-06 16:05:08.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:08.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:08.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:08.734][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:08.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:08.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:08.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:08.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:08.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:08.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:08.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:08.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:08.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:08.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:08.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:08.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:08.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:08.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:08.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:08.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:08.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:08.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:08.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:08.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:08.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:08.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:08.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:08.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:08.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:08.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:08.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:08.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:08.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:08.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:08.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:08.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:08.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:08.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:08.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:08.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:08.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:08.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:08.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:08.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:08.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:08.797][private$loadEntries] Creating entries from ids [1]: "65567".
biodb.DEBUG[2024-07-06 16:05:08.798][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:08.800][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65567".
biodb.TRACE[2024-07-06 16:05:08.802][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:08.803][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:08.805][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:08.806][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:08.807][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:08.808][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:08.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:08.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:08.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:08.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:08.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:08.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:08.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:08.826][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567".
biodb.DEBUG[2024-07-06 16:05:08.829][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:08.831][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:08.832][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567".
biodb.TRACE[2024-07-06 16:05:09.209][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567).
biodb.DEBUG[2024-07-06 16:05:09.595][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:09.597][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7f0d7a30f02eb1e897d8c17a3958aa76.content"
biodb.TRACE[2024-07-06 16:05:09.602][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7f0d7a30f02eb1e897d8c17a3958aa76.request"
biodb.TRACE[2024-07-06 16:05:09.605][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65567.xml"
biodb.DEBUG[2024-07-06 16:05:09.607][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:09.608][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:09.610][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:09.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:09.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:09.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:09.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:09.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:09.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:09.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:09.627][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:09.628][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:09.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.631][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:09.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:09.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.637][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:09.639][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:09.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.641][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.643][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:09.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:09.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.648][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:09.649][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:09.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.651][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.653][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:09.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:09.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.658][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:09.659][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:09.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.662][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:09.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:09.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.668][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:09.670][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:09.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.672][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:09.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:09.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.679][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:09.680][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:09.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.683][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.684][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:09.686][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:09.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.688][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.690][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:09.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:09.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.695][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:09.696][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:09.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.698][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:09.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:09.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.705][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:09.706][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:09.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.708][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.710][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:09.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:09.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.715][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:09.716][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:09.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.719][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.720][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:09.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:09.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.725][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:09.727][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:09.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.729][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.731][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:09.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:09.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:09.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:09.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:09.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:09.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:09.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:09.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:09.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:09.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:09.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:09.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:09.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:09.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:09.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:09.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:09.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:09.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:09.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:09.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:09.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:09.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:09.787][self$createEntryFromContent] Accession numbers: 65567.
biodb.TRACE[2024-07-06 16:05:09.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:09.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:09.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:09.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:09.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:09.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:09.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:09.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:09.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:09.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:09.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:09.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:09.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:09.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:09.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:09.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:09.817][private$loadEntries] Creating entries from ids [1]: "65576".
biodb.DEBUG[2024-07-06 16:05:09.825][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:09.833][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65576".
biodb.TRACE[2024-07-06 16:05:09.834][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:09.836][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:09.837][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:09.839][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:09.840][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:09.841][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:09.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:09.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:09.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:09.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:09.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:09.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:09.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:09.858][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576".
biodb.DEBUG[2024-07-06 16:05:09.861][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:09.863][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:09.864][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576".
biodb.TRACE[2024-07-06 16:05:10.241][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576).
biodb.DEBUG[2024-07-06 16:05:10.615][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:10.618][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/df387492c1d7c1e81f35830307d5d903.content"
biodb.TRACE[2024-07-06 16:05:10.623][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/df387492c1d7c1e81f35830307d5d903.request"
biodb.TRACE[2024-07-06 16:05:10.626][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65576.xml"
biodb.DEBUG[2024-07-06 16:05:10.628][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:10.629][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:10.631][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:10.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:10.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:10.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:10.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:10.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:10.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:10.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:10.647][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:10.648][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:10.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.651][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:10.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:10.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.657][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:10.659][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:10.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.661][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.662][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:10.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:10.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.667][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:10.669][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:10.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.671][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.673][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:10.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:10.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.678][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:10.679][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:10.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.683][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.684][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:10.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:10.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.689][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:10.691][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:10.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.693][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:10.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:10.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.700][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:10.702][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:10.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.704][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.706][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:10.707][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:10.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.710][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.711][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:10.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:10.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.717][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:10.718][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:10.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.720][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:10.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:10.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.727][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:10.729][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:10.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.732][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.734][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:10.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:10.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.739][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:10.740][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:10.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.743][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.744][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:10.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:10.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.749][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:10.751][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:10.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.753][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.755][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:10.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:10.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:10.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:10.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:10.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:10.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:10.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:10.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:10.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:10.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:10.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:10.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:10.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:10.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:10.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:10.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:10.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:10.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:10.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:10.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:10.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:10.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:10.814][self$createEntryFromContent] Accession numbers: 65576.
biodb.TRACE[2024-07-06 16:05:10.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:10.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:10.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:10.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:10.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:10.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:10.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:10.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:10.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:10.830][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:10.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:10.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:10.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:10.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:10.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:10.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:10.844][private$loadEntries] Creating entries from ids [1]: "66352".
biodb.DEBUG[2024-07-06 16:05:10.845][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:10.847][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66352".
biodb.TRACE[2024-07-06 16:05:10.849][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:10.850][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:10.852][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:10.853][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:10.854][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:10.855][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:10.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:10.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:10.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:10.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:10.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:10.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:10.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:10.872][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352".
biodb.DEBUG[2024-07-06 16:05:10.876][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:10.877][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:10.879][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352".
biodb.TRACE[2024-07-06 16:05:11.255][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352).
biodb.DEBUG[2024-07-06 16:05:11.625][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:11.627][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/45b0333aa11c1e7eb4af7d2d82f453d6.content"
biodb.TRACE[2024-07-06 16:05:11.632][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/45b0333aa11c1e7eb4af7d2d82f453d6.request"
biodb.TRACE[2024-07-06 16:05:11.635][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66352.xml"
biodb.DEBUG[2024-07-06 16:05:11.637][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:11.638][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:11.640][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:11.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:11.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:11.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:11.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:11.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:11.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:11.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:11.657][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:11.658][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:11.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.661][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:11.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:11.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.667][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:11.669][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:11.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.671][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.673][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:11.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:11.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.678][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:11.679][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:11.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.682][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.683][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:11.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:11.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.688][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:11.690][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:11.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.692][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.694][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:11.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:11.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.699][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:11.700][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:11.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.703][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:11.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:11.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.709][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:11.711][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:11.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.714][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.715][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:11.716][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:11.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.719][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.720][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:11.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:11.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.726][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:11.727][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:11.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.729][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:11.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:11.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.736][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:11.737][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:11.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.740][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:11.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:11.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.760][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:11.761][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:11.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.764][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.765][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:11.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:11.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.771][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:11.772][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:11.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.775][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.777][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:11.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:11.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:11.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:11.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:11.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:11.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:11.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:11.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:11.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:11.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:11.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:11.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:11.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:11.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:11.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:11.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:11.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:11.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:11.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:11.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:11.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:11.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:11.835][self$createEntryFromContent] Accession numbers: 66352.
biodb.TRACE[2024-07-06 16:05:11.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:11.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:11.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:11.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:11.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:11.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:11.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:11.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:11.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:11.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:11.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:11.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:11.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:11.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:11.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:11.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:11.867][private$loadEntries] Creating entries from ids [1]: "67567".
biodb.DEBUG[2024-07-06 16:05:11.868][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:11.870][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67567".
biodb.TRACE[2024-07-06 16:05:11.872][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:11.873][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:11.875][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:11.876][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:11.877][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:11.879][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:11.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:11.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:11.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:11.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:11.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:11.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:11.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:11.896][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567".
biodb.DEBUG[2024-07-06 16:05:11.899][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:11.901][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:11.903][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567".
biodb.TRACE[2024-07-06 16:05:12.277][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567).
biodb.DEBUG[2024-07-06 16:05:12.646][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:12.648][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef82f494f4fdd41c2bb93aa0869ad73e.content"
biodb.TRACE[2024-07-06 16:05:12.653][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef82f494f4fdd41c2bb93aa0869ad73e.request"
biodb.TRACE[2024-07-06 16:05:12.656][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67567.xml"
biodb.DEBUG[2024-07-06 16:05:12.658][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:12.660][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:12.661][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:12.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:12.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:12.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:12.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:12.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:12.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:12.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:12.678][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:12.680][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:12.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.682][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:12.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:12.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.689][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:12.691][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:12.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.693][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.695][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:12.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:12.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.700][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:12.701][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:12.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.704][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.705][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:12.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:12.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.710][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:12.712][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:12.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.714][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:12.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:12.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.721][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:12.722][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:12.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.724][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.726][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:12.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:12.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.731][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:12.732][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:12.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.735][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.736][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:12.738][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:12.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.740][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.741][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:12.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:12.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.747][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:12.748][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:12.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.750][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:12.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:12.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.757][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:12.758][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:12.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.760][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:12.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:12.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.767][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:12.769][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:12.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.771][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.772][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:12.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:12.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.777][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:12.779][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:12.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.781][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.783][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:12.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:12.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:12.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:12.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:12.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:12.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:12.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:12.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:12.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:12.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:12.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:12.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:12.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:12.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:12.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:12.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:12.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:12.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:12.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:12.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:12.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:12.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:12.837][self$createEntryFromContent] Accession numbers: 67567.
biodb.TRACE[2024-07-06 16:05:12.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:12.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:12.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:12.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:12.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:12.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:12.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:12.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:12.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:12.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:12.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:12.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:12.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:12.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:12.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:12.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:12.866][private$loadEntries] Creating entries from ids [1]: "67693".
biodb.DEBUG[2024-07-06 16:05:12.868][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:12.870][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67693".
biodb.TRACE[2024-07-06 16:05:12.871][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:12.872][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:12.874][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:12.875][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:12.876][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:12.878][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:12.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:12.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:12.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:12.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:12.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:12.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:12.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:12.894][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693".
biodb.DEBUG[2024-07-06 16:05:12.898][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:12.899][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:12.901][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693".
biodb.TRACE[2024-07-06 16:05:13.270][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693).
biodb.DEBUG[2024-07-06 16:05:13.639][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:13.642][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/007181120197262f6a39eff57d7aa092.content"
biodb.TRACE[2024-07-06 16:05:13.659][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/007181120197262f6a39eff57d7aa092.request"
biodb.TRACE[2024-07-06 16:05:13.662][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67693.xml"
biodb.DEBUG[2024-07-06 16:05:13.665][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:13.666][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:13.668][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:13.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:13.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:13.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:13.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:13.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:13.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:13.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:13.685][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:13.686][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:13.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.688][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:13.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:13.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.695][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:13.696][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:13.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.699][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.700][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:13.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:13.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.706][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:13.707][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:13.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.709][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.711][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:13.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:13.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.719][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:13.721][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:13.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.723][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.725][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:13.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:13.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.730][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:13.731][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:13.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.734][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:13.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:13.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.740][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:13.742][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:13.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.744][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.746][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:13.747][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:13.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.749][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.751][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:13.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:13.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.756][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:13.757][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:13.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.760][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:13.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:13.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.766][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:13.768][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:13.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.770][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:13.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:13.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.777][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:13.778][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:13.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.781][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.782][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:13.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:13.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.787][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:13.789][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:13.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.791][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.793][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:13.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:13.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:13.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:13.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:13.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:13.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:13.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:13.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:13.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:13.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:13.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:13.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:13.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:13.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:13.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:13.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:13.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:13.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:13.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:13.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:13.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:13.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:13.848][self$createEntryFromContent] Accession numbers: 67693.
biodb.TRACE[2024-07-06 16:05:13.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:13.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:13.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:13.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:13.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:13.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:13.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:13.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:13.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:13.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:13.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:13.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:13.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:13.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:13.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:13.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:13.878][private$loadEntries] Creating entries from ids [1]: "67700".
biodb.DEBUG[2024-07-06 16:05:13.879][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:13.881][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67700".
biodb.TRACE[2024-07-06 16:05:13.883][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:13.884][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:13.885][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:13.887][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:13.888][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:13.889][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:13.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:13.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:13.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:13.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:13.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:13.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:13.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:13.906][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700".
biodb.DEBUG[2024-07-06 16:05:13.909][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:13.911][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:13.913][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700".
biodb.TRACE[2024-07-06 16:05:14.283][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700).
biodb.DEBUG[2024-07-06 16:05:14.656][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:14.658][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e41afa9432b74fa2b22a0c53e84c091a.content"
biodb.TRACE[2024-07-06 16:05:14.663][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e41afa9432b74fa2b22a0c53e84c091a.request"
biodb.TRACE[2024-07-06 16:05:14.666][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67700.xml"
biodb.DEBUG[2024-07-06 16:05:14.668][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:14.669][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:14.671][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:14.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:14.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:14.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:14.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:14.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:14.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:14.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:14.687][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:14.688][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:14.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.691][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:14.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:14.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.697][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:14.699][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:14.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.701][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.703][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:14.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:14.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.708][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:14.709][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:14.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.711][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.713][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:14.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:14.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.718][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:14.720][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:14.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.722][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.724][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:14.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:14.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.729][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:14.730][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:14.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.733][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:14.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:14.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.739][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:14.741][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:14.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.743][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.745][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:14.746][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:14.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.749][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.750][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:14.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:14.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.755][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:14.757][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:14.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.759][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:14.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:14.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.766][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:14.767][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:14.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.769][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.771][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:14.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:14.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.776][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:14.778][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:14.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.780][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.781][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:14.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:14.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.787][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:14.788][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:14.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.790][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.792][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:14.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:14.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:14.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:14.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:14.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:14.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:14.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:14.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:14.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:14.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:14.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:14.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:14.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:14.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:14.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:14.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:14.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:14.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:14.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:14.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:14.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:14.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:14.858][self$createEntryFromContent] Accession numbers: 67700.
biodb.TRACE[2024-07-06 16:05:14.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:14.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:14.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:14.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:14.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:14.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:14.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:14.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:14.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:14.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:14.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:14.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:14.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:14.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:14.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:14.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:14.887][private$loadEntries] Creating entries from ids [1]: "67701".
biodb.DEBUG[2024-07-06 16:05:14.889][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:14.891][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67701".
biodb.TRACE[2024-07-06 16:05:14.892][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:14.894][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:14.895][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:14.896][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:14.898][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:14.899][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:14.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:14.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:14.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:14.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:14.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:14.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:14.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:14.916][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701".
biodb.DEBUG[2024-07-06 16:05:14.919][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:14.921][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:14.923][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701".
biodb.TRACE[2024-07-06 16:05:15.296][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701).
biodb.DEBUG[2024-07-06 16:05:15.667][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:15.670][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ca9443fe11bfb8fe207e2797d18dbba3.content"
biodb.TRACE[2024-07-06 16:05:15.675][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ca9443fe11bfb8fe207e2797d18dbba3.request"
biodb.TRACE[2024-07-06 16:05:15.678][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67701.xml"
biodb.DEBUG[2024-07-06 16:05:15.680][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:15.681][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:15.683][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:15.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:15.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:15.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:15.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:15.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:15.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:15.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:15.701][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:15.702][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:15.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.705][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:15.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:15.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.711][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:15.713][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:15.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.715][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.717][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:15.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:15.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.722][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:15.723][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:15.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.726][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.727][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:15.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:15.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.733][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:15.734][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:15.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.736][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:15.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:15.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.743][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:15.744][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:15.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.747][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:15.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:15.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.754][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:15.755][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:15.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.757][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.759][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:15.761][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:15.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.763][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.765][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:15.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:15.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.770][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:15.771][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:15.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.774][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:15.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:15.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.781][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:15.782][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:15.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.784][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.786][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:15.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:15.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.791][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:15.793][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:15.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.795][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.797][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:15.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:15.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.802][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:15.803][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:15.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.806][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.807][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:15.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:15.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:15.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:15.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:15.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:15.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:15.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:15.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:15.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:15.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:15.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:15.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:15.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:15.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:15.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:15.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:15.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:15.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:15.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:15.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:15.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:15.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:15.864][self$createEntryFromContent] Accession numbers: 67701.
biodb.TRACE[2024-07-06 16:05:15.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:15.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:15.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:15.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:15.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:15.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:15.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:15.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:15.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:15.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:15.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:15.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:15.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:15.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:15.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:15.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:15.894][private$loadEntries] Creating entries from ids [1]: "67705".
biodb.DEBUG[2024-07-06 16:05:15.895][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:15.897][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67705".
biodb.TRACE[2024-07-06 16:05:15.899][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:15.900][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:15.901][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:15.903][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:15.904][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:15.905][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:15.908][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:15.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:15.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:15.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:15.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:15.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:15.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:15.922][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705".
biodb.DEBUG[2024-07-06 16:05:15.926][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:15.927][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:15.929][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705".
biodb.TRACE[2024-07-06 16:05:16.311][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705).
biodb.DEBUG[2024-07-06 16:05:16.685][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:16.687][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19583a5be2f48ffe4ea86ed642cbc7df.content"
biodb.TRACE[2024-07-06 16:05:16.692][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19583a5be2f48ffe4ea86ed642cbc7df.request"
biodb.TRACE[2024-07-06 16:05:16.695][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67705.xml"
biodb.DEBUG[2024-07-06 16:05:16.697][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:16.698][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:16.700][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:16.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:16.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:16.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:16.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:16.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:16.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:16.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:16.724][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:16.725][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:16.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.728][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:16.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:16.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.734][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:16.753][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:16.755][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.757][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.759][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:16.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:16.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.765][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:16.766][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:16.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.770][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.773][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:16.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:16.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.782][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:16.783][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:16.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.786][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:16.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:16.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.793][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:16.794][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:16.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.797][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:16.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:16.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.804][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:16.805][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:16.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.808][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.809][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:16.810][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:16.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.813][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.814][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:16.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:16.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.819][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:16.821][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:16.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.823][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:16.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:16.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.830][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:16.831][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:16.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.834][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.836][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:16.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:16.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.841][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:16.842][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:16.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.844][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.846][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:16.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:16.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.851][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:16.852][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:16.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.855][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.856][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:16.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:16.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:16.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:16.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:16.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:16.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:16.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:16.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:16.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:16.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:16.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:16.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:16.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:16.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:16.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:16.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:16.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:16.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:16.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:16.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:16.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:16.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:16.912][self$createEntryFromContent] Accession numbers: 67705.
biodb.TRACE[2024-07-06 16:05:16.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:16.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:16.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:16.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:16.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:16.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:16.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:16.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:16.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:16.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:16.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:16.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:16.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:16.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:16.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:16.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:16.943][private$loadEntries] Creating entries from ids [1]: "75265".
biodb.DEBUG[2024-07-06 16:05:16.944][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:16.946][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75265".
biodb.TRACE[2024-07-06 16:05:16.947][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:16.949][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:16.950][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:16.951][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:16.953][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:16.954][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:16.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:16.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:16.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:16.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:16.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:16.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:16.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:16.970][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265".
biodb.DEBUG[2024-07-06 16:05:16.974][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:16.975][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:16.977][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265".
biodb.TRACE[2024-07-06 16:05:17.351][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265).
biodb.DEBUG[2024-07-06 16:05:17.725][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:17.728][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d89a3a12f8b9f5e8203e72f55b0016ed.content"
biodb.TRACE[2024-07-06 16:05:17.732][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d89a3a12f8b9f5e8203e72f55b0016ed.request"
biodb.TRACE[2024-07-06 16:05:17.736][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75265.xml"
biodb.DEBUG[2024-07-06 16:05:17.738][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:17.739][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:17.741][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:17.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:17.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:17.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:17.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:17.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:17.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:17.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:17.758][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:17.760][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:17.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.762][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:17.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:17.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.769][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:17.770][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:17.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.773][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.774][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:17.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:17.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.780][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:17.781][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:17.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.783][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.785][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:17.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:17.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.790][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:17.792][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:17.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.794][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.795][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:17.797][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:17.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.799][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.801][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:17.802][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:17.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.804][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.806][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:17.807][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:17.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.810][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.811][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:17.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:17.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.816][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:17.818][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:17.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.820][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:17.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:17.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.826][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:17.828][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:17.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.830][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:17.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:17.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.837][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:17.838][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:17.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.840][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.842][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:17.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:17.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.847][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:17.848][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:17.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.851][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.852][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:17.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:17.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:17.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:17.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:17.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:17.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:17.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:17.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:17.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:17.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:17.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:17.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:17.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:17.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:17.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:17.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:17.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:17.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:17.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:17.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:17.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:17.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:17.907][self$createEntryFromContent] Accession numbers: 75265.
biodb.TRACE[2024-07-06 16:05:17.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:17.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:17.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:17.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:17.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:17.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:17.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:17.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:17.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:17.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:17.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:17.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:17.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:17.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:17.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:17.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:17.946][private$loadEntries] Creating entries from ids [1]: "77370".
biodb.DEBUG[2024-07-06 16:05:17.947][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:17.949][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77370".
biodb.TRACE[2024-07-06 16:05:17.950][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:17.952][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:17.953][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:17.954][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:17.956][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:17.957][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:17.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:17.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:17.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:17.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:17.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:17.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:17.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:17.973][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370".
biodb.DEBUG[2024-07-06 16:05:17.977][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:17.978][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:17.980][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370".
biodb.TRACE[2024-07-06 16:05:18.371][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370).
biodb.DEBUG[2024-07-06 16:05:18.747][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:18.750][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c00fcc12163fc12434466e6319d4b9a8.content"
biodb.TRACE[2024-07-06 16:05:18.754][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c00fcc12163fc12434466e6319d4b9a8.request"
biodb.TRACE[2024-07-06 16:05:18.758][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77370.xml"
biodb.DEBUG[2024-07-06 16:05:18.760][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:18.761][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:18.763][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:18.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:18.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:18.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:18.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:18.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:18.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:18.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:18.779][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:18.781][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:18.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.783][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:18.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:18.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.790][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:18.791][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:18.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.794][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.795][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:18.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:18.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.800][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:18.802][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:18.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.804][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.806][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:18.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:18.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.811][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:18.812][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:18.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.815][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.816][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:18.818][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:18.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.820][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.822][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:18.823][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:18.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.826][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.827][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:18.829][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:18.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.831][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.833][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:18.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:18.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.838][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:18.839][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:18.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.842][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:18.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:18.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.849][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:18.850][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:18.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.852][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:18.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:18.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.859][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:18.861][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:18.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.863][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.865][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:18.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:18.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.870][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:18.871][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:18.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.874][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.875][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:18.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:18.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:18.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:18.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:18.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:18.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:18.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:18.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:18.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:18.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:18.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:18.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:18.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:18.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:18.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:18.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:18.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:18.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:18.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:18.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:18.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:18.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:18.932][self$createEntryFromContent] Accession numbers: 77370.
biodb.TRACE[2024-07-06 16:05:18.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:18.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:18.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:18.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:18.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:18.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:18.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:18.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:18.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:18.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:18.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:18.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:18.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:18.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:18.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:18.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:18.962][private$loadEntries] Creating entries from ids [1]: "79074".
biodb.DEBUG[2024-07-06 16:05:18.963][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:18.965][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79074".
biodb.TRACE[2024-07-06 16:05:18.967][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:18.968][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:18.970][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:18.971][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:18.972][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:18.974][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:18.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:18.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:18.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:18.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:18.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:18.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:18.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:18.992][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074".
biodb.DEBUG[2024-07-06 16:05:18.995][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:18.997][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:18.999][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074".
biodb.TRACE[2024-07-06 16:05:19.369][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074).
biodb.DEBUG[2024-07-06 16:05:19.750][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:19.753][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9d103521a9057f87b1d7f6dac467847d.content"
biodb.TRACE[2024-07-06 16:05:19.757][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9d103521a9057f87b1d7f6dac467847d.request"
biodb.TRACE[2024-07-06 16:05:19.760][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79074.xml"
biodb.DEBUG[2024-07-06 16:05:19.762][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:19.764][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:19.765][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:19.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:19.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:19.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:19.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:19.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:19.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:19.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:19.783][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:19.784][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:19.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.786][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:19.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:19.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.793][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:19.794][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:19.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.796][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.798][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:19.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:19.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.803][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:19.804][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:19.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.806][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.808][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:19.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:19.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.813][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:19.814][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:19.815][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.817][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:19.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:19.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.823][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:19.824][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:19.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.827][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:19.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:19.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.833][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:19.834][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:19.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.837][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.838][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:19.840][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:19.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.842][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.843][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:19.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:19.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.860][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:19.862][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:19.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.865][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:19.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:19.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.871][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:19.873][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:19.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.875][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.877][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:19.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:19.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.882][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:19.883][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:19.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.886][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.887][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:19.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:19.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.892][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:19.894][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:19.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.896][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.898][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:19.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:19.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:19.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:19.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:19.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:19.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:19.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:19.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:19.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:19.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:19.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:19.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:19.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:19.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:19.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:19.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:19.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:19.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:19.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:19.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:19.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:19.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:19.982][self$createEntryFromContent] Accession numbers: 79074.
biodb.TRACE[2024-07-06 16:05:19.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:19.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:19.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:19.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:19.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:19.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:19.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:19.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:19.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:19.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:20.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:20.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:20.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:20.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:20.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:20.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:20.013][private$loadEntries] Creating entries from ids [1]: "79302".
biodb.DEBUG[2024-07-06 16:05:20.014][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:20.016][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79302".
biodb.TRACE[2024-07-06 16:05:20.017][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:20.019][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:20.020][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:20.021][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:20.023][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:20.024][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:20.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:20.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:20.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:20.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:20.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:20.038][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:20.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:20.041][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302".
biodb.DEBUG[2024-07-06 16:05:20.045][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:20.046][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:20.048][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302".
biodb.TRACE[2024-07-06 16:05:20.418][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302).
biodb.DEBUG[2024-07-06 16:05:20.791][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:20.794][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/db109891c430ecee6c4d31019e936bb4.content"
biodb.TRACE[2024-07-06 16:05:20.799][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/db109891c430ecee6c4d31019e936bb4.request"
biodb.TRACE[2024-07-06 16:05:20.804][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79302.xml"
biodb.DEBUG[2024-07-06 16:05:20.807][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:20.810][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:20.812][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:20.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:20.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:20.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:20.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:20.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:20.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:20.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:20.832][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:20.834][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:20.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.837][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:20.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:20.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.844][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:20.846][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:20.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.848][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.850][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:20.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:20.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.855][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:20.856][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:20.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.859][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.861][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:20.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:20.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.866][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:20.868][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:20.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.870][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.871][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:20.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:20.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.877][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:20.878][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:20.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.905][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.906][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:20.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:20.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.928][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:20.929][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:20.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.932][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.951][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:20.952][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:20.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.955][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.959][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:20.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:20.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.966][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:20.968][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:20.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.975][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:20.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:20.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.982][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:20.983][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:20.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.986][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:20.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:20.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.994][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:20.995][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:20.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:20.997][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:20.999][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:21.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:21.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.004][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:21.006][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:21.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.008][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.009][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:21.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:21.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:21.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:21.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:21.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:21.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:21.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:21.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:21.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:21.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:21.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:21.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:21.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:21.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:21.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:21.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:21.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:21.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:21.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:21.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:21.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:21.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:21.064][self$createEntryFromContent] Accession numbers: 79302.
biodb.TRACE[2024-07-06 16:05:21.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:21.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:21.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:21.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:21.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:21.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:21.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:21.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:21.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:21.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:21.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:21.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:21.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:21.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:21.093][private$loadEntries] Creating entries from ids [1]: "84164".
biodb.DEBUG[2024-07-06 16:05:21.094][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:21.096][cch$loadFileContent] Trying to load 1 files from cache: [1]: "84164".
biodb.TRACE[2024-07-06 16:05:21.098][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:21.099][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:21.101][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:21.102][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:21.103][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:21.104][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:21.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:21.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:21.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:21.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:21.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:21.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:21.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:21.132][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164".
biodb.DEBUG[2024-07-06 16:05:21.136][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:21.137][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:21.139][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164".
biodb.TRACE[2024-07-06 16:05:21.516][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164).
biodb.DEBUG[2024-07-06 16:05:21.889][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:21.892][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5878d01d3db7a255abcfdf35c60dd985.content"
biodb.TRACE[2024-07-06 16:05:21.896][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5878d01d3db7a255abcfdf35c60dd985.request"
biodb.TRACE[2024-07-06 16:05:21.900][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/84164.xml"
biodb.DEBUG[2024-07-06 16:05:21.902][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:21.903][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:21.904][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:21.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:21.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:21.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:21.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:21.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:21.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:21.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:21.921][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:21.922][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:21.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.925][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:21.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:21.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.932][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:21.934][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:21.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.936][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.938][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:21.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:21.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.943][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:21.944][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:21.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.946][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.948][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:21.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:21.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.953][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:21.955][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:21.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.957][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:21.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:21.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.964][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:21.965][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:21.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.967][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.969][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:21.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:21.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.974][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:21.976][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:21.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.978][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.980][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:21.981][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:21.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.983][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.985][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:21.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:21.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.990][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:21.992][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:21.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:21.994][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:21.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:21.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:21.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.001][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:22.003][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:22.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.005][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:22.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:22.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.012][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:22.014][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:22.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.016][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.018][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:22.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:22.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.023][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:22.024][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:22.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.027][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.028][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:22.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:22.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:22.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:22.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:22.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:22.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:22.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:22.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:22.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:22.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:22.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:22.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:22.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:22.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:22.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:22.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:22.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:22.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:22.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:22.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:22.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:22.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:22.085][self$createEntryFromContent] Accession numbers: 84164.
biodb.TRACE[2024-07-06 16:05:22.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:22.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:22.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:22.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:22.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:22.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:22.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:22.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:22.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:22.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:22.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:22.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:22.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:22.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:22.115][private$loadEntries] Creating entries from ids [1]: "132314".
biodb.DEBUG[2024-07-06 16:05:22.117][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:22.119][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132314".
biodb.TRACE[2024-07-06 16:05:22.120][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:22.122][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:22.123][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:22.125][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:22.126][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:22.127][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:22.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:22.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:22.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:22.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:22.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:22.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:22.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:22.145][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314".
biodb.DEBUG[2024-07-06 16:05:22.149][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:22.150][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:22.152][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314".
biodb.TRACE[2024-07-06 16:05:22.535][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314).
biodb.DEBUG[2024-07-06 16:05:22.915][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:22.917][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/faff8e4827734119a684907f214879a2.content"
biodb.TRACE[2024-07-06 16:05:22.922][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/faff8e4827734119a684907f214879a2.request"
biodb.TRACE[2024-07-06 16:05:22.926][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132314.xml"
biodb.DEBUG[2024-07-06 16:05:22.929][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:22.930][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:22.932][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:22.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:22.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:22.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:22.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:22.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:22.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:22.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:22.950][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:22.952][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:22.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.955][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:22.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:22.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.962][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:22.963][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:22.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.966][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.968][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:22.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:22.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.973][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:22.974][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:22.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.977][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.978][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:22.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:22.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.984][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:22.985][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:22.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.988][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:22.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:22.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:22.995][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:22.997][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:22.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:22.999][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:23.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:23.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.007][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:23.008][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:23.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.011][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.012][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:23.014][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:23.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.016][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.018][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:23.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:23.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.023][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:23.024][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:23.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.027][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:23.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:23.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.034][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:23.035][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:23.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.037][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:23.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:23.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.045][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:23.046][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:23.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.049][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.050][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:23.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:23.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.055][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:23.057][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:23.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.077][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.078][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:23.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:23.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:23.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:23.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:23.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:23.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:23.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:23.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:23.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:23.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:23.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:23.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:23.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:23.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:23.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:23.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:23.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:23.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:23.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:23.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:23.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:23.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:23.134][self$createEntryFromContent] Accession numbers: 132314.
biodb.TRACE[2024-07-06 16:05:23.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:23.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:23.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:23.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:23.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:23.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:23.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:23.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:23.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:23.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:23.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:23.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:23.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:23.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:23.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:23.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:23.165][private$loadEntries] Creating entries from ids [1]: "132338".
biodb.DEBUG[2024-07-06 16:05:23.167][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:23.169][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132338".
biodb.TRACE[2024-07-06 16:05:23.171][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:23.172][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:23.173][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:23.175][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:23.176][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:23.177][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:23.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:23.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:23.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:23.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:23.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:23.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:23.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:23.195][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338".
biodb.DEBUG[2024-07-06 16:05:23.199][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:23.200][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:23.202][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338".
biodb.TRACE[2024-07-06 16:05:23.577][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338).
biodb.DEBUG[2024-07-06 16:05:23.948][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:23.950][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ab2b9171a775a690a32a30e73cf2a1c.content"
biodb.TRACE[2024-07-06 16:05:23.955][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ab2b9171a775a690a32a30e73cf2a1c.request"
biodb.TRACE[2024-07-06 16:05:23.959][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132338.xml"
biodb.DEBUG[2024-07-06 16:05:23.961][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:23.962][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:23.964][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:23.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:23.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:23.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:23.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:24.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:24.001][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:24.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:24.005][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:24.007][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:24.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.009][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:24.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:24.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.016][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:24.018][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:24.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.020][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.022][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:24.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:24.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.027][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:24.029][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:24.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.031][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.033][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:24.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:24.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.038][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:24.040][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:24.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.042][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:24.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:24.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.050][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:24.052][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:24.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.054][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:24.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:24.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.061][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:24.063][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:24.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.066][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.067][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:24.069][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:24.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.072][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.073][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:24.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:24.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.079][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:24.081][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:24.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.083][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:24.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:24.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.091][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:24.092][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:24.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.095][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.096][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:24.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:24.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.102][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:24.103][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:24.104][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.105][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.107][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:24.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:24.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.112][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:24.114][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:24.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.116][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.118][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:24.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:24.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:24.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:24.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:24.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:24.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:24.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:24.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:24.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:24.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:24.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:24.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:24.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:24.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:24.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:24.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:24.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:24.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:24.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:24.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:24.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:24.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:24.175][self$createEntryFromContent] Accession numbers: 132338.
biodb.TRACE[2024-07-06 16:05:24.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:24.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:24.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:24.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:24.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:24.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:24.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:24.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:24.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:24.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:24.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:24.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:24.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:24.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:24.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:24.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:24.205][private$loadEntries] Creating entries from ids [1]: "139019".
biodb.DEBUG[2024-07-06 16:05:24.206][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:24.208][cch$loadFileContent] Trying to load 1 files from cache: [1]: "139019".
biodb.TRACE[2024-07-06 16:05:24.210][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:24.211][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:24.212][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:24.214][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:24.215][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:24.216][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:24.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:24.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:24.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:24.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:24.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:24.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:24.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:24.233][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019".
biodb.DEBUG[2024-07-06 16:05:24.237][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:24.238][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:24.240][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019".
biodb.TRACE[2024-07-06 16:05:24.609][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019).
biodb.DEBUG[2024-07-06 16:05:24.981][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:24.983][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c6e6f1783364d5307c1e22caca9f3324.content"
biodb.TRACE[2024-07-06 16:05:24.988][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c6e6f1783364d5307c1e22caca9f3324.request"
biodb.TRACE[2024-07-06 16:05:24.992][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/139019.xml"
biodb.DEBUG[2024-07-06 16:05:24.994][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:24.995][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:24.997][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:24.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:25.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:25.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:25.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:25.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:25.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:25.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:25.027][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:25.029][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:25.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.031][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:25.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:25.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.038][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:25.039][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:25.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.042][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.043][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:25.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:25.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.049][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:25.050][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:25.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.053][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.054][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:25.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:25.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.059][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:25.061][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:25.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.063][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:25.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:25.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.070][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:25.071][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:25.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.074][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.075][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:25.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:25.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.081][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:25.083][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:25.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.086][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.088][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:25.089][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:25.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.092][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.093][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:25.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:25.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.099][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:25.100][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:25.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.103][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:25.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:25.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.110][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:25.111][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:25.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.114][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:25.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:25.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.121][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:25.122][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:25.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.125][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.126][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:25.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:25.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.132][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:25.133][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:25.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.136][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.137][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:25.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:25.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:25.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:25.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:25.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:25.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:25.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:25.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:25.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:25.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:25.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:25.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:25.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:25.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:25.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:25.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:25.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:25.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:25.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:25.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:25.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:25.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:25.194][self$createEntryFromContent] Accession numbers: 139019.
biodb.TRACE[2024-07-06 16:05:25.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:25.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:25.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:25.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:25.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:25.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:25.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:25.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:25.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:25.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:25.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:25.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:25.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:25.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:25.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:25.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:25.223][private$loadEntries] Creating entries from ids [1]: "139367".
biodb.DEBUG[2024-07-06 16:05:25.225][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:25.227][cch$loadFileContent] Trying to load 1 files from cache: [1]: "139367".
biodb.TRACE[2024-07-06 16:05:25.228][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:25.230][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:25.231][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:25.232][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:25.234][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:25.235][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:25.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:25.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:25.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:25.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:25.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:25.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:25.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:25.252][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367".
biodb.DEBUG[2024-07-06 16:05:25.255][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:25.257][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:25.258][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367".
biodb.TRACE[2024-07-06 16:05:25.626][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367).
biodb.DEBUG[2024-07-06 16:05:25.997][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:26.000][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ad7d38680a9a89d96fe967aa23d4180d.content"
biodb.TRACE[2024-07-06 16:05:26.004][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ad7d38680a9a89d96fe967aa23d4180d.request"
biodb.TRACE[2024-07-06 16:05:26.007][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/139367.xml"
biodb.DEBUG[2024-07-06 16:05:26.009][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:26.011][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:26.012][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:26.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:26.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:26.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:26.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:26.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:26.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:26.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:26.029][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:26.030][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:26.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.033][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:26.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:26.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.039][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:26.040][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:26.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.043][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.044][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:26.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:26.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.049][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:26.050][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:26.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.053][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.054][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:26.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:26.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.059][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:26.060][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:26.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.063][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.064][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:26.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:26.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.069][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:26.071][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:26.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.073][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.074][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:26.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:26.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.079][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:26.081][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:26.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.083][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.084][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:26.086][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:26.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.088][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.090][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:26.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:26.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.095][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:26.097][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:26.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.099][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:26.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:26.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.106][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:26.108][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:26.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.110][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.112][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:26.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:26.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.118][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:26.119][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:26.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.121][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.123][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:26.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:26.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.128][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:26.130][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:26.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.132][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.134][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:26.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:26.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:26.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:26.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:26.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:26.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:26.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:26.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:26.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:26.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:26.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:26.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:26.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:26.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:26.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:26.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:26.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:26.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:26.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:26.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:26.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:26.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:26.200][self$createEntryFromContent] Accession numbers: 139367.
biodb.TRACE[2024-07-06 16:05:26.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:26.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:26.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:26.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:26.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:26.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:26.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:26.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:26.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:26.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:26.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:26.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:26.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:26.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:26.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:26.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:26.230][private$loadEntries] Creating entries from ids [1]: "145029".
biodb.DEBUG[2024-07-06 16:05:26.231][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:26.233][cch$loadFileContent] Trying to load 1 files from cache: [1]: "145029".
biodb.TRACE[2024-07-06 16:05:26.234][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:26.236][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:26.237][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:26.238][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:26.240][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:26.241][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:26.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:26.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:26.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:26.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:26.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:26.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:26.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:26.257][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029".
biodb.DEBUG[2024-07-06 16:05:26.261][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:26.262][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:26.264][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029".
biodb.TRACE[2024-07-06 16:05:26.641][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029).
biodb.DEBUG[2024-07-06 16:05:27.014][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:27.016][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6db4642c7bdbd10dc105b3470394caa5.content"
biodb.TRACE[2024-07-06 16:05:27.021][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6db4642c7bdbd10dc105b3470394caa5.request"
biodb.TRACE[2024-07-06 16:05:27.024][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/145029.xml"
biodb.DEBUG[2024-07-06 16:05:27.026][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:27.027][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:27.029][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:27.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:27.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:27.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:27.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:27.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:27.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:27.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:27.045][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:27.047][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:27.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.049][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:27.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:27.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.055][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:27.057][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:27.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.059][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.060][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:27.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:27.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.065][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:27.067][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:27.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.069][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.071][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:27.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:27.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.076][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:27.077][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:27.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.079][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.081][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:27.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:27.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.086][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:27.087][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:27.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.089][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.091][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:27.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:27.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.096][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:27.097][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:27.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.099][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.101][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:27.102][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:27.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.105][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.106][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:27.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:27.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.111][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:27.112][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:27.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.115][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:27.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:27.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.121][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:27.122][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:27.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.125][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.127][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:27.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:27.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.132][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:27.133][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:27.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.135][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.137][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:27.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:27.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.142][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:27.143][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:27.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.145][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.147][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:27.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:27.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:27.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:27.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:27.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:27.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:27.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:27.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:27.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:27.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:27.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:27.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:27.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:27.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:27.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:27.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:27.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:27.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:27.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:27.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:27.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:27.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:27.203][self$createEntryFromContent] Accession numbers: 145029.
biodb.TRACE[2024-07-06 16:05:27.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:27.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:27.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:27.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:27.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:27.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:27.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:27.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:27.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:27.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:27.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:27.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:27.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:27.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:27.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:27.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:27.233][private$loadEntries] Creating entries from ids [1]: "173077".
biodb.DEBUG[2024-07-06 16:05:27.234][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:27.236][cch$loadFileContent] Trying to load 1 files from cache: [1]: "173077".
biodb.TRACE[2024-07-06 16:05:27.238][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:27.239][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:27.241][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:27.242][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:27.243][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:27.244][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:27.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:27.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:27.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:27.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:27.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:27.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:27.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:27.261][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077".
biodb.DEBUG[2024-07-06 16:05:27.265][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:27.266][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:27.268][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077".
biodb.TRACE[2024-07-06 16:05:27.640][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077).
biodb.DEBUG[2024-07-06 16:05:28.103][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:28.106][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/337fedbe654250105ac3b03683794b9b.content"
biodb.TRACE[2024-07-06 16:05:28.110][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/337fedbe654250105ac3b03683794b9b.request"
biodb.TRACE[2024-07-06 16:05:28.114][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/173077.xml"
biodb.DEBUG[2024-07-06 16:05:28.116][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:28.118][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:28.119][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:28.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:28.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:28.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:28.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:28.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:28.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:28.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:28.136][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:28.138][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:28.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.140][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:28.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:28.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.147][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:28.148][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:28.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.150][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.152][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:28.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:28.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.157][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:28.158][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:28.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.161][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.162][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:28.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:28.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.167][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:28.169][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:28.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.184][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:28.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:28.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.191][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:28.192][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:28.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.195][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:28.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:28.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.202][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:28.203][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:28.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.206][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.207][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:28.209][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:28.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.211][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.213][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:28.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:28.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.218][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:28.219][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:28.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.222][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:28.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:28.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.228][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:28.229][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:28.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.232][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.234][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:28.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:28.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.239][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:28.240][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:28.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.242][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.244][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:28.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:28.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.249][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:28.250][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:28.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.253][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.254][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:28.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:28.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:28.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:28.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:28.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:28.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:28.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:28.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:28.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:28.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:28.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:28.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:28.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:28.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:28.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:28.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:28.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:28.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:28.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:28.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:28.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:28.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:28.310][self$createEntryFromContent] Accession numbers: 173077.
biodb.TRACE[2024-07-06 16:05:28.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:28.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:28.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:28.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:28.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:28.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:28.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:28.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:28.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:28.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:28.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:28.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:28.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:28.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:28.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:28.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:28.339][private$loadEntries] Creating entries from ids [1]: "365445".
biodb.DEBUG[2024-07-06 16:05:28.340][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:28.342][cch$loadFileContent] Trying to load 1 files from cache: [1]: "365445".
biodb.TRACE[2024-07-06 16:05:28.344][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:28.345][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:28.346][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:28.348][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:28.349][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:28.350][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:28.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:28.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:28.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:28.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:28.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:28.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:28.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:28.367][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445".
biodb.DEBUG[2024-07-06 16:05:28.370][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:28.371][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:28.373][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445".
biodb.TRACE[2024-07-06 16:05:28.749][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445).
biodb.DEBUG[2024-07-06 16:05:29.123][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:29.126][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/026ecb4be6491f40bcefe5cdf8425328.content"
biodb.TRACE[2024-07-06 16:05:29.131][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/026ecb4be6491f40bcefe5cdf8425328.request"
biodb.TRACE[2024-07-06 16:05:29.134][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365445.xml"
biodb.DEBUG[2024-07-06 16:05:29.136][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:29.138][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:29.139][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:29.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:29.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:29.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:29.150][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:29.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:29.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:29.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:29.156][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:29.157][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:29.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.159][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:29.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:29.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.166][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:29.168][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:29.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.170][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.172][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:29.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:29.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.177][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:29.178][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:29.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.181][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.182][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:29.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:29.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.188][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:29.189][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:29.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.191][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:29.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:29.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.198][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:29.199][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:29.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.202][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.203][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:29.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:29.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.208][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:29.210][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:29.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.212][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.214][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:29.215][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:29.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.217][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.219][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:29.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:29.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.224][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:29.225][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:29.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.228][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:29.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:29.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.234][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:29.236][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:29.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.238][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.240][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:29.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:29.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.245][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:29.246][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:29.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.248][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.250][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:29.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:29.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.255][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:29.256][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:29.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.259][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.260][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:29.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:29.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:29.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:29.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:29.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:29.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:29.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:29.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:29.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:29.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:29.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:29.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:29.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:29.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:29.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:29.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:29.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:29.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:29.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:29.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:29.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:29.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:29.315][self$createEntryFromContent] Accession numbers: 365445.
biodb.TRACE[2024-07-06 16:05:29.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:29.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:29.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:29.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:29.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:29.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:29.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:29.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:29.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:29.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:29.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:29.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:29.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:29.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:29.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:29.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:29.357][private$loadEntries] Creating entries from ids [1]: "32151".
biodb.DEBUG[2024-07-06 16:05:29.358][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:29.360][cch$loadFileContent] Trying to load 1 files from cache: [1]: "32151".
biodb.TRACE[2024-07-06 16:05:29.362][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:29.363][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:29.364][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:29.366][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:29.367][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:29.368][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:29.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:29.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:29.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:29.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:29.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:29.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:29.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:29.388][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151".
biodb.DEBUG[2024-07-06 16:05:29.392][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:29.393][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:29.395][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151".
biodb.TRACE[2024-07-06 16:05:29.767][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151).
biodb.DEBUG[2024-07-06 16:05:30.141][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:30.144][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/094c4c16dd654c0e11594a0cd5a42217.content"
biodb.TRACE[2024-07-06 16:05:30.160][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/094c4c16dd654c0e11594a0cd5a42217.request"
biodb.TRACE[2024-07-06 16:05:30.171][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32151.xml"
biodb.DEBUG[2024-07-06 16:05:30.173][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:30.175][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:30.176][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:30.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:30.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:30.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:30.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:30.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:30.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:30.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:30.193][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:30.194][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:30.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.196][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:30.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:30.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.203][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:30.204][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:30.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.207][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.208][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:30.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:30.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.213][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:30.215][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:30.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.217][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.219][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:30.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:30.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.224][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:30.226][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:30.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.228][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:30.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:30.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.235][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:30.236][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:30.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.239][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:30.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:30.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.246][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:30.247][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:30.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.249][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.251][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:30.252][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:30.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.255][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.256][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:30.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:30.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.262][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:30.263][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:30.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.265][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:30.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:30.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.272][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:30.273][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:30.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.276][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.278][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:30.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:30.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.283][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:30.284][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:30.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.287][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.288][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:30.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:30.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.293][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:30.295][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:30.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.297][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.299][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:30.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:30.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:30.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:30.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:30.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:30.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:30.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:30.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:30.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:30.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:30.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:30.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:30.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:30.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:30.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:30.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:30.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:30.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:30.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:30.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:30.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:30.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:30.357][self$createEntryFromContent] Accession numbers: 32151.
biodb.TRACE[2024-07-06 16:05:30.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:30.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:30.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:30.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:30.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:30.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:30.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:30.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:30.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:30.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:30.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:30.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:30.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:30.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:30.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:30.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:30.387][private$loadEntries] Creating entries from ids [1]: "67676".
biodb.DEBUG[2024-07-06 16:05:30.388][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:30.390][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67676".
biodb.TRACE[2024-07-06 16:05:30.392][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:30.393][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:30.394][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:30.396][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:30.397][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:30.398][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:30.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:30.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:30.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:30.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:30.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:30.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:30.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:30.415][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676".
biodb.DEBUG[2024-07-06 16:05:30.419][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:30.420][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:30.422][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676".
biodb.TRACE[2024-07-06 16:05:30.794][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676).
biodb.DEBUG[2024-07-06 16:05:31.164][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:31.167][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f87eff9f669415e5528b4d9281ce70e2.content"
biodb.TRACE[2024-07-06 16:05:31.172][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f87eff9f669415e5528b4d9281ce70e2.request"
biodb.TRACE[2024-07-06 16:05:31.176][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67676.xml"
biodb.DEBUG[2024-07-06 16:05:31.178][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:31.179][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:31.181][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:31.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:31.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:31.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:31.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:31.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:31.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:31.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:31.198][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:31.200][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:31.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.202][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:31.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:31.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.209][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:31.211][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:31.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.213][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.215][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:31.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:31.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.220][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:31.222][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:31.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.224][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.226][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:31.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:31.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.231][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:31.232][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:31.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.235][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:31.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:31.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.242][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:31.243][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:31.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.245][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:31.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:31.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.252][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:31.254][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:31.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.256][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.258][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:31.259][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:31.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.262][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.263][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:31.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:31.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.269][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:31.270][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:31.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.280][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:31.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:31.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.294][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:31.296][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:31.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.298][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:31.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:31.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.306][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:31.307][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:31.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.310][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.311][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:31.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:31.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.318][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:31.319][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:31.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.322][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.324][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:31.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:31.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:31.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:31.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:31.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:31.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:31.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:31.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:31.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:31.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:31.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:31.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:31.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:31.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:31.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:31.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:31.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:31.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:31.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:31.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:31.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:31.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:31.384][self$createEntryFromContent] Accession numbers: 67676.
biodb.TRACE[2024-07-06 16:05:31.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:31.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:31.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:31.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:31.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:31.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:31.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:31.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:31.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:31.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:31.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:31.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:31.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:31.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:31.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:31.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:31.415][private$loadEntries] Creating entries from ids [1]: "69690".
biodb.DEBUG[2024-07-06 16:05:31.416][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:31.418][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69690".
biodb.TRACE[2024-07-06 16:05:31.420][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:31.421][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:31.423][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:31.424][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:31.425][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:31.427][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:31.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:31.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:31.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:31.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:31.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:31.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:31.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:31.444][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690".
biodb.DEBUG[2024-07-06 16:05:31.447][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:31.449][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:31.450][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690".
biodb.TRACE[2024-07-06 16:05:31.825][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690).
biodb.DEBUG[2024-07-06 16:05:32.200][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:32.202][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ce43467f7e4550d502ff0cc79c06666.content"
biodb.TRACE[2024-07-06 16:05:32.207][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ce43467f7e4550d502ff0cc79c06666.request"
biodb.TRACE[2024-07-06 16:05:32.210][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69690.xml"
biodb.DEBUG[2024-07-06 16:05:32.212][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:32.214][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:32.215][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:32.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:32.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:32.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:32.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:32.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:32.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:32.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:32.232][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:32.234][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:32.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.237][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:32.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:32.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.243][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:32.245][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:32.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.247][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.249][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:32.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:32.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.254][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:32.255][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:32.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.258][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.259][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:32.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:32.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.265][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:32.266][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:32.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.269][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.271][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:32.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:32.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.276][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:32.277][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:32.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.280][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.282][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:32.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:32.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.287][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:32.288][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:32.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.291][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.292][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:32.294][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:32.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.296][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.298][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:32.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:32.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.303][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:32.304][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:32.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.307][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:32.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:32.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.313][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:32.315][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:32.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.317][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.319][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:32.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:32.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.324][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:32.326][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:32.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.328][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.329][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:32.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:32.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.335][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:32.336][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:32.338][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.339][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.340][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:32.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:32.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:32.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:32.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:32.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:32.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:32.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:32.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:32.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:32.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:32.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:32.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:32.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:32.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:32.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:32.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:32.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:32.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:32.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:32.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:32.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:32.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:32.400][self$createEntryFromContent] Accession numbers: 69690.
biodb.TRACE[2024-07-06 16:05:32.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:32.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:32.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:32.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:32.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:32.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:32.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:32.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:32.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:32.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:32.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:32.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:32.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:32.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:32.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:32.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:32.431][private$loadEntries] Creating entries from ids [1]: "69734".
biodb.DEBUG[2024-07-06 16:05:32.432][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:32.434][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69734".
biodb.TRACE[2024-07-06 16:05:32.436][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:32.437][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:32.439][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:32.440][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:32.442][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:32.443][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:32.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:32.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:32.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:32.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:32.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:32.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:32.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:32.461][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734".
biodb.DEBUG[2024-07-06 16:05:32.475][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:32.476][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:32.478][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734".
biodb.TRACE[2024-07-06 16:05:32.852][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734).
biodb.DEBUG[2024-07-06 16:05:33.230][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:33.233][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3ed7db8dba94801a8856f9bde313afe1.content"
biodb.TRACE[2024-07-06 16:05:33.246][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3ed7db8dba94801a8856f9bde313afe1.request"
biodb.TRACE[2024-07-06 16:05:33.252][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69734.xml"
biodb.DEBUG[2024-07-06 16:05:33.255][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:33.257][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:33.259][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:33.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:33.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:33.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:33.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:33.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:33.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:33.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:33.282][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:33.283][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:33.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.285][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:33.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:33.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.293][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:33.295][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:33.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.299][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.301][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:33.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:33.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.306][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:33.308][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:33.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.310][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.312][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:33.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:33.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.319][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:33.322][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:33.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.325][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:33.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:33.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.332][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:33.333][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:33.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.336][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.337][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:33.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:33.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.343][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:33.345][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:33.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.348][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.350][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:33.352][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:33.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.355][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.357][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:33.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:33.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.363][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:33.365][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:33.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.369][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:33.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:33.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.377][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:33.378][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:33.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.381][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.384][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:33.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:33.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.389][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:33.390][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:33.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.393][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.394][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:33.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:33.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.400][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:33.401][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:33.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.403][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.405][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:33.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:33.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:33.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:33.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:33.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:33.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:33.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:33.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:33.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:33.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:33.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:33.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:33.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:33.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:33.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:33.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:33.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:33.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:33.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:33.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:33.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:33.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:33.464][self$createEntryFromContent] Accession numbers: 69734.
biodb.TRACE[2024-07-06 16:05:33.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:33.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:33.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:33.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:33.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:33.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:33.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:33.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:33.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:33.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:33.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:33.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:33.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:33.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:33.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:33.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:33.493][private$loadEntries] Creating entries from ids [1]: "79978".
biodb.DEBUG[2024-07-06 16:05:33.495][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:33.497][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79978".
biodb.TRACE[2024-07-06 16:05:33.498][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:33.500][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:33.501][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:33.502][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:33.503][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:33.505][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:33.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:33.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:33.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:33.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:33.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:33.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:33.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:33.521][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978".
biodb.DEBUG[2024-07-06 16:05:33.525][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:33.526][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:33.529][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978".
biodb.TRACE[2024-07-06 16:05:33.903][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978).
biodb.DEBUG[2024-07-06 16:05:34.290][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:34.292][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fb887d003d6fc3b4aa767483d261b31c.content"
biodb.TRACE[2024-07-06 16:05:34.296][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fb887d003d6fc3b4aa767483d261b31c.request"
biodb.TRACE[2024-07-06 16:05:34.300][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79978.xml"
biodb.DEBUG[2024-07-06 16:05:34.302][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:34.303][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:34.305][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:34.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:34.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:34.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:34.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:34.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:34.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:34.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:34.321][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:34.323][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:34.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.325][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:34.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:34.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.332][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:34.333][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:34.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.335][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.337][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:34.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:34.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.342][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:34.343][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:34.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.346][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.347][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:34.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:34.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.352][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:34.354][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:34.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.356][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.358][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:34.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:34.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.363][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:34.364][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:34.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.366][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:34.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:34.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.373][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:34.374][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:34.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.377][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.378][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:34.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:34.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.383][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:34.385][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:34.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.387][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.389][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:34.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:34.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.394][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:34.395][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:34.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.397][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:34.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:34.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.404][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:34.405][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:34.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.408][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.410][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:34.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:34.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.415][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:34.416][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:34.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.418][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.420][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:34.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:34.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.425][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:34.426][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:34.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.435][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.443][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:34.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:34.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:34.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:34.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:34.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:34.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:34.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:34.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:34.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:34.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:34.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:34.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:34.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:34.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:34.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:34.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:34.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:34.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:34.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:34.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:34.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:34.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:34.497][self$createEntryFromContent] Accession numbers: 79978.
biodb.TRACE[2024-07-06 16:05:34.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:34.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:34.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:34.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:34.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:34.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:34.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:34.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:34.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:34.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:34.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:34.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:34.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:34.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:34.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:34.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:34.525][private$loadEntries] Creating entries from ids [1]: "88771".
biodb.DEBUG[2024-07-06 16:05:34.527][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-06 16:05:34.529][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88771".
biodb.TRACE[2024-07-06 16:05:34.530][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 16:05:34.531][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 16:05:34.533][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 16:05:34.534][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-06 16:05:34.535][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-06 16:05:34.536][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-06 16:05:34.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:34.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:34.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:34.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:34.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:34.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:34.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:34.553][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771".
biodb.DEBUG[2024-07-06 16:05:34.556][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-06 16:05:34.558][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-06 16:05:34.559][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771".
biodb.TRACE[2024-07-06 16:05:34.940][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771).
biodb.DEBUG[2024-07-06 16:05:35.313][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-06 16:05:35.315][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f96325cdb7f39b42d0ab67a7fc41aced.content"
biodb.TRACE[2024-07-06 16:05:35.320][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f96325cdb7f39b42d0ab67a7fc41aced.request"
biodb.TRACE[2024-07-06 16:05:35.324][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88771.xml"
biodb.DEBUG[2024-07-06 16:05:35.326][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-06 16:05:35.327][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-06 16:05:35.329][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-06 16:05:35.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:35.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:35.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:35.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:35.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:35.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:35.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:35.346][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:35.347][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:35.348][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.349][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:35.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:35.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.356][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:35.357][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:35.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.360][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.361][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:35.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:35.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.366][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:35.368][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:35.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.370][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.372][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:35.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:35.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.377][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:35.378][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:35.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.381][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.382][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:35.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:35.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.388][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:35.389][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:35.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.391][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:35.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:35.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.398][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:35.399][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:35.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.402][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.403][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:35.405][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:35.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.407][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.409][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-06 16:05:35.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:35.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.414][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.415][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.418][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.425][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:35.426][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:35.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.428][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.430][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:35.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:35.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.435][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:35.437][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:35.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.439][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.440][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-06 16:05:35.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:35.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.446][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:35.447][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:35.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.449][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.451][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:35.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:35.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:35.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:35.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:35.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:35.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:35.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:35.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:35.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:35.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:35.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:35.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:35.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:35.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:35.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:35.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:35.507][self$createEntryFromContent] Accession numbers: 88771.
biodb.TRACE[2024-07-06 16:05:35.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:35.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:35.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:35.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:35.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:35.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:35.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:35.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:35.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:35.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:35.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:35.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:35.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:35.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:35.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:35.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:35.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:35.581][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:35.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:35.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:35.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:35.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:35.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:35.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:35.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:35.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.617][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.618][private$selectFields]
biodb.TRACE[2024-07-06 16:05:35.619][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:35.621][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:35.622][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.623][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.625][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.627][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.628][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.630][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.632][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.633][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.635][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.636][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.637][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.639][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.641][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:35.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.658][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:05:35.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:35.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:35.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:35.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:35.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:35.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:35.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:35.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.683][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.684][private$selectFields]
biodb.TRACE[2024-07-06 16:05:35.685][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:35.686][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:35.687][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.688][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.690][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.692][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.693][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.695][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.697][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.698][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.700][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.701][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.702][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.704][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.706][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:35.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.722][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-07-06 16:05:35.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:35.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:35.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:35.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:35.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:35.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:35.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:35.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.747][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.748][private$selectFields]
biodb.TRACE[2024-07-06 16:05:35.749][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:35.751][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:35.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.753][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.754][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.757][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.759][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.762][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.763][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.764][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.766][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.767][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.769][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.771][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:35.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.787][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-07-06 16:05:35.789][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:35.790][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:35.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:35.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:35.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:35.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:35.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:35.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:35.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:35.807][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:35.812][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:35.813][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2024-07-06 16:05:35.815][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:35.817][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2024-07-06 16:05:35.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:35.826][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:35.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:35.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:35.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:35.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:35.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:35.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:35.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:35.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:35.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:35.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:35.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:35.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:35.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:35.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:35.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:35.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:35.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:35.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:35.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:35.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:35.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:35.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:35.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:35.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:35.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:35.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:35.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:35.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:35.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:35.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:35.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:35.940][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:35.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:35.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:35.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:35.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:35.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:35.952][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:35.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:35.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.966][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.967][private$selectFields]
biodb.TRACE[2024-07-06 16:05:35.968][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:35.969][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:35.970][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.972][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.973][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.975][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.976][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.978][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.980][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.981][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.982][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:35.984][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.985][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.987][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.989][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:35.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:35.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:35.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:35.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.005][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-07-06 16:05:36.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.037][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.038][private$selectFields]
biodb.TRACE[2024-07-06 16:05:36.039][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:36.040][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:36.041][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.043][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.044][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.046][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.047][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.049][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.051][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.052][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.053][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.055][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.056][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.058][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.059][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:36.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.076][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-07-06 16:05:36.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.099][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.101][private$selectFields]
biodb.TRACE[2024-07-06 16:05:36.102][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:36.103][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:36.104][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.105][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.107][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.109][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.110][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.111][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.114][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.115][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.116][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.117][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.119][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.121][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.122][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:36.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.139][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-07-06 16:05:36.140][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:36.141][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:36.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.177][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:36.181][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:36.185][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:36.187][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2024-07-06 16:05:36.188][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:36.190][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2024-07-06 16:05:36.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:36.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:36.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:36.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:36.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:36.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:36.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:36.394][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:36.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.419][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.420][private$selectFields]
biodb.TRACE[2024-07-06 16:05:36.422][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:36.423][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:36.432][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.433][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.435][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.438][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.439][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.440][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.442][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.444][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.445][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.446][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.447][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.450][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.451][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:36.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.468][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-07-06 16:05:36.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.470][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.491][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.493][private$selectFields]
biodb.TRACE[2024-07-06 16:05:36.494][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:36.495][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:36.496][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.497][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.499][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.501][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.502][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.505][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.506][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.507][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.508][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.509][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.511][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.513][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.514][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:36.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.530][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-07-06 16:05:36.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.555][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.556][private$selectFields]
biodb.TRACE[2024-07-06 16:05:36.557][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:36.558][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:36.559][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.560][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.562][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.564][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.565][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.567][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.569][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.570][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.571][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.573][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.574][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.576][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.577][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:36.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.594][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [34764].
biodb.DEBUG[2024-07-06 16:05:36.596][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:36.597][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:36.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:36.614][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:36.619][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:36.620][cch$loadFileContent] Trying to load 1 files from cache: [1]: "365d4ea5e0e90826806fec708da6c9ab".
biodb.TRACE[2024-07-06 16:05:36.622][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:36.624][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.content".
biodb.DEBUG[2024-07-06 16:05:36.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:36.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:36.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:36.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:36.748][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:36.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.774][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.775][private$selectFields]
biodb.TRACE[2024-07-06 16:05:36.776][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:36.777][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:36.778][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.780][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.781][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.783][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.785][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.786][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.788][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.790][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.791][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.792][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.794][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.796][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.797][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:36.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.815][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [2535].
biodb.DEBUG[2024-07-06 16:05:36.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.847][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.849][private$selectFields]
biodb.TRACE[2024-07-06 16:05:36.850][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:36.851][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:36.852][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.854][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.855][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.857][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.859][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.860][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.862][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.864][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.865][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.866][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.867][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.870][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.871][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:36.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.887][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:05:36.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.912][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.913][private$selectFields]
biodb.TRACE[2024-07-06 16:05:36.914][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:36.915][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:36.916][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.917][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.919][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.921][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.922][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.926][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.927][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.928][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:36.930][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.931][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.933][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.935][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:36.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:36.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:36.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:36.951][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-07-06 16:05:36.952][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:36.953][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:36.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:36.971][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:36.976][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:36.977][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7b0416ab2d5cbf869f248000c039a8e8".
biodb.TRACE[2024-07-06 16:05:36.979][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:36.981][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.content".
biodb.DEBUG[2024-07-06 16:05:36.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:36.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:36.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:36.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:36.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:36.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:36.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:36.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:36.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:37.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.013][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:37.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:37.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:37.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:37.128][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:37.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.155][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.156][private$selectFields]
biodb.TRACE[2024-07-06 16:05:37.158][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:37.159][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:37.160][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.162][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.163][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.166][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.167][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.169][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.171][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.172][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.174][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.177][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.179][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.181][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:37.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.198][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [31303].
biodb.DEBUG[2024-07-06 16:05:37.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.224][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.225][private$selectFields]
biodb.TRACE[2024-07-06 16:05:37.226][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:37.227][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:37.229][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.230][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.231][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.234][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.235][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.236][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.239][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.240][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.241][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.243][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.244][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.246][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.248][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:37.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.272][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [81767].
biodb.DEBUG[2024-07-06 16:05:37.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.307][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.310][private$selectFields]
biodb.TRACE[2024-07-06 16:05:37.311][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:37.313][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:37.315][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.317][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.319][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.322][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.323][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.324][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.327][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.328][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.329][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.330][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.332][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.334][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.335][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:37.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.354][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [131378].
biodb.DEBUG[2024-07-06 16:05:37.357][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:37.359][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:37.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:37.402][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:37.406][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:37.408][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-06 16:05:37.410][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:37.412][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-06 16:05:37.415][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:37.420][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:37.422][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-06 16:05:37.423][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:37.425][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-06 16:05:37.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:37.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:37.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:37.516][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:37.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.542][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.543][private$selectFields]
biodb.TRACE[2024-07-06 16:05:37.545][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:37.546][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:37.547][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.548][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.550][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.552][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.553][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.555][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.557][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.558][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.559][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.561][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.562][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.565][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.566][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:37.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.583][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-06 16:05:37.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.607][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.608][private$selectFields]
biodb.TRACE[2024-07-06 16:05:37.610][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:37.611][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:37.612][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.613][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.615][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.617][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.618][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.619][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.623][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.624][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.625][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.627][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.629][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.630][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:37.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.647][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:05:37.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.671][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.672][private$selectFields]
biodb.TRACE[2024-07-06 16:05:37.673][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:37.674][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:37.675][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.677][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.678][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.680][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.682][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.683][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.685][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.686][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.688][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.689][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.690][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.693][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.694][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:37.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.718][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-06 16:05:37.719][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:37.721][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:37.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:37.738][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:37.742][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:37.744][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-07-06 16:05:37.746][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:37.747][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-07-06 16:05:37.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:37.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:37.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:37.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:37.835][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:37.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.860][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.862][private$selectFields]
biodb.TRACE[2024-07-06 16:05:37.863][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:37.864][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:37.865][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.866][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.868][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.870][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.871][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.873][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.875][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.878][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.879][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.880][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.883][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.884][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:37.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.900][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:05:37.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.925][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.927][private$selectFields]
biodb.TRACE[2024-07-06 16:05:37.928][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:37.929][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:37.930][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.931][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.933][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.935][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.936][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.938][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.940][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.941][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.943][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.944][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.945][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.948][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.949][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:37.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.966][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-07-06 16:05:37.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:37.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:37.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:37.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:37.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:37.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:37.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:37.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:37.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:37.991][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.992][private$selectFields]
biodb.TRACE[2024-07-06 16:05:37.993][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:37.994][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:37.996][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:37.997][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.998][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:37.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.001][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.002][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.003][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.006][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.007][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.008][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.009][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.011][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.013][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.014][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:38.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.031][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-07-06 16:05:38.032][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:38.033][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:38.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:38.051][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:38.055][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:38.057][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-07-06 16:05:38.058][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:38.060][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-07-06 16:05:38.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.156][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:38.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.181][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.182][private$selectFields]
biodb.TRACE[2024-07-06 16:05:38.183][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:38.184][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:38.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.187][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.188][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.190][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.195][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.197][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.198][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.199][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.200][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.203][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.204][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:38.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.220][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-07-06 16:05:38.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.245][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.246][private$selectFields]
biodb.TRACE[2024-07-06 16:05:38.247][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:38.248][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:38.250][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.251][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.252][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.254][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.256][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.257][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.259][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.261][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.262][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.263][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.264][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.266][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.268][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:38.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.284][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-07-06 16:05:38.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.308][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.309][private$selectFields]
biodb.TRACE[2024-07-06 16:05:38.310][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:38.311][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:38.312][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.314][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.315][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.317][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.318][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.320][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.322][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.323][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.325][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.326][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.327][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.329][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.330][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:38.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.347][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2024-07-06 16:05:38.348][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:38.349][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:38.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:38.389][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:38.393][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:38.395][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26eec570aadd234892b573eb0777bd78".
biodb.TRACE[2024-07-06 16:05:38.396][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:38.398][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.content".
biodb.DEBUG[2024-07-06 16:05:38.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.604][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.631][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:38.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.656][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.657][private$selectFields]
biodb.TRACE[2024-07-06 16:05:38.659][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:38.660][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:38.661][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.662][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.664][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.666][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.671][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.672][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.673][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.675][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.676][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.678][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.679][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:38.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.696][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-06 16:05:38.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.721][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.722][private$selectFields]
biodb.TRACE[2024-07-06 16:05:38.723][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:38.724][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:38.725][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.727][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.730][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.731][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.733][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.735][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.738][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.742][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.744][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:38.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.760][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-06 16:05:38.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.786][private$selectFields]
biodb.TRACE[2024-07-06 16:05:38.787][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:38.788][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:38.789][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.791][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.792][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.794][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.796][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.797][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.799][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.801][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.802][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:38.803][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.804][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.807][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.808][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:38.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:38.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.825][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-06 16:05:38.826][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:38.827][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:38.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:38.845][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:38.849][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:38.850][cch$loadFileContent] Trying to load 1 files from cache: [1]: "20c224089a82bbffabd2e7dbc67cfae3".
biodb.TRACE[2024-07-06 16:05:38.852][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:38.854][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.content".
biodb.DEBUG[2024-07-06 16:05:38.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:38.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:38.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:38.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:38.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:38.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:38.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:38.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:38.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:38.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:38.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:38.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.270][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.722][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:39.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:39.757][private$selectFields]
biodb.TRACE[2024-07-06 16:05:39.758][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:39.759][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:39.760][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:39.761][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.763][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.765][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.766][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.768][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.770][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.771][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:39.773][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:39.774][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.775][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.778][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.779][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:39.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.795][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-07-06 16:05:39.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.821][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:39.822][private$selectFields]
biodb.TRACE[2024-07-06 16:05:39.823][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:39.824][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:39.826][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:39.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.831][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.832][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.833][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.836][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.837][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:39.838][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:39.840][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.841][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.843][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.845][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:39.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.862][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-07-06 16:05:39.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.888][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:39.889][private$selectFields]
biodb.TRACE[2024-07-06 16:05:39.890][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:39.891][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:39.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:39.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.898][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.901][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.903][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.904][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:39.906][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:39.907][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.908][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.911][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.912][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:39.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:39.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.929][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-07-06 16:05:39.930][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:39.931][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:39.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:39.949][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:39.953][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:39.955][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2024-07-06 16:05:39.957][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:39.959][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2024-07-06 16:05:39.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:39.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:39.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:39.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:39.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:39.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:39.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:39.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:39.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:39.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:39.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:39.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:40.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:40.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:40.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:40.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:40.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:40.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:40.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:40.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:40.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:40.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:40.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:40.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:40.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:40.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:40.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:40.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:40.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:40.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:40.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:40.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:40.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:40.082][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:40.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:40.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:40.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:40.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:40.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:40.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:40.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:40.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.107][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:40.108][private$selectFields]
biodb.TRACE[2024-07-06 16:05:40.110][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:40.111][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:40.112][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:40.113][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.115][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.117][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.118][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.120][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.122][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.123][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:40.125][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:40.126][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.127][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.129][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.130][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.131][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:40.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.148][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-07-06 16:05:40.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:40.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:40.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:40.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:40.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:40.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:40.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:40.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.181][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:40.182][private$selectFields]
biodb.TRACE[2024-07-06 16:05:40.183][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:40.185][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:40.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:40.187][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.188][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.191][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.196][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.197][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:40.198][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:40.200][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.201][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.203][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.204][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:40.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.221][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-07-06 16:05:40.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:40.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:40.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:40.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:40.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:40.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:40.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:40.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.246][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:40.247][private$selectFields]
biodb.TRACE[2024-07-06 16:05:40.248][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:40.249][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:40.251][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:40.252][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.253][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.256][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.257][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.261][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.262][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:40.264][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-06 16:05:40.265][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.266][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.269][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.270][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-06 16:05:40.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.287][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-07-06 16:05:40.288][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:40.290][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-06 16:05:40.314][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:05:40.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:05:40.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.320][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:05:40.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:05:40.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.325][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:05:40.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:05:40.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-06 16:05:40.335][biodb::testThat]
biodb.INFO [2024-07-06 16:05:40.336][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2024-07-06 16:05:40.337][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 16:05:40.338][biodb::testThat]
biodb.TRACE[2024-07-06 16:05:40.342][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:05:40.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:05:40.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.347][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:05:40.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:05:40.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.352][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 16:05:40.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 16:05:40.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.409][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:40.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:40.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:40.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:40.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:40.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:40.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:40.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:40.438][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:40.443][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:40.445][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-06 16:05:40.446][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:40.448][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-06 16:05:40.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:40.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:40.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:40.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:40.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:40.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:40.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:40.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:40.481][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:40.485][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:40.487][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-06 16:05:40.488][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:40.490][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-06 16:05:40.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:40.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:40.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:40.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:40.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:40.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:40.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:40.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:40.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:40.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:40.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:40.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:40.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:40.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:40.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:40.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:40.553][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:40.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:40.556][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:40.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:40.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:40.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:40.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:40.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:40.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:40.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:40.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:40.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:40.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.587][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:40.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:40.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.593][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:40.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:40.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.608][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:40.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:40.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.614][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:40.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:40.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.619][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:40.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:40.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:40.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:40.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.639][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:40.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:40.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.644][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:40.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:40.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.669][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:40.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:40.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.674][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:40.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:40.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.679][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:40.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:40.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.684][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:40.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:40.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.689][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:40.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:40.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.695][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:40.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:40.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.700][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:40.701][private$selectFields]
biodb.TRACE[2024-07-06 16:05:40.702][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:40.704][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:40.705][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:40.706][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:40.708][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:40.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.710][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.712][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:40.713][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:40.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.715][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.716][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.718][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.720][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.722][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:40.723][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:40.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.725][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.727][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:40.728][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:40.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.730][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.732][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.733][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.735][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.737][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:40.738][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:40.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.740][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.742][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.743][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.744][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.745][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.747][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.748][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.750][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.752][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:40.753][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:40.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.755][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.756][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:40.758][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:40.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.760][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.761][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:40.763][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:40.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.765][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.767][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:40.768][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:40.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.770][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.771][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:40.773][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:40.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.775][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.776][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.778][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.781][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.782][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:40.783][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:40.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.786][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.787][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:40.788][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:40.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.791][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.792][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.793][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.796][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.797][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:40.798][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:40.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.801][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.802][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.803][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.806][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.807][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.808][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.810][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.812][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:40.813][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:40.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.815][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.816][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:40.818][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:40.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.820][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.821][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:40.823][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:40.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.825][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.826][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:40.827][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:40.829][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:40.830][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:40.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.832][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.833][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:40.835][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:40.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.837][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.838][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.840][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.842][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.843][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:40.844][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:40.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.847][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.848][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:40.849][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:40.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.852][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.853][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.854][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.856][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.858][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.859][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.861][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.862][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.864][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:40.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.866][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.867][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:40.868][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:40.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.871][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.872][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:40.873][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:40.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.876][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.877][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:40.878][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:40.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.881][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.882][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:40.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:40.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:40.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:40.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:40.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:40.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:40.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.898][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:40.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:40.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.903][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:40.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:40.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.908][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:40.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:40.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:40.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.928][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:40.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:40.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.933][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:40.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:40.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.938][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:40.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:40.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:40.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:40.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:40.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:40.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:40.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:40.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:40.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:40.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:40.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:40.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.175][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.180][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.185][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.190][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.195][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.200][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.205][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.210][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.215][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.229][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [192288, 0, 192288, C27H54O2, InChI=1S/C27H54O2/c1-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21-22-23-24-25-26-27(28)29-2/h3-26H2,1-2H3, ...].
biodb.DEBUG[2024-07-06 16:05:41.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:41.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:41.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:41.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:41.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:41.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:41.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:41.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:41.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:41.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:41.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:41.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.253][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:41.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:41.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.258][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:41.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:41.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.272][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:41.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:41.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.277][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:41.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:41.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.282][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:41.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:41.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:41.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:41.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.301][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.306][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.331][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.336][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.351][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.357][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.362][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:41.363][private$selectFields]
biodb.TRACE[2024-07-06 16:05:41.364][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:41.365][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:41.366][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:41.368][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:41.369][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:41.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.372][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.373][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:41.375][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:41.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.378][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.379][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.383][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.385][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:41.386][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:41.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.389][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.390][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:41.392][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:41.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.395][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.396][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.398][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.400][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.402][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.403][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.406][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.407][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.408][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.410][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.412][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.413][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.415][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.416][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.418][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.420][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.421][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.423][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.425][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.426][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.427][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.430][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.431][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:41.432][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:41.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.435][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.436][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:41.437][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:41.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.439][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.441][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.442][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.444][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.446][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:41.447][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:41.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.449][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.450][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:41.452][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:41.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.454][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.455][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.456][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.459][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.460][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.461][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.464][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.465][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.466][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.468][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.470][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.471][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.473][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.475][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.476][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.478][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.479][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.481][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.483][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.484][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.486][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.488][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.489][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:41.490][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:41.492][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:41.493][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:41.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.495][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.496][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:41.498][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:41.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.500][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.501][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.505][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.506][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:41.507][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:41.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.510][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.511][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:41.512][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:41.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.514][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.516][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.517][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.519][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.521][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.522][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.524][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.525][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.527][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.529][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.530][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.531][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.534][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.535][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.536][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.539][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.540][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.542][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.545][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.546][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.548][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.550][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.552][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:41.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:41.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:41.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:41.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:41.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:41.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:41.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.574][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:41.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:41.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.578][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:41.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:41.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.583][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:41.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:41.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:41.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:41.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.607][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:41.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:41.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.612][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:41.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:41.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:41.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:41.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.622][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:41.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:41.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:41.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:41.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.641][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.646][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.651][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.655][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.689][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.694][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.699][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.704][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.714][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.718][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.723][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.728][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.741][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2024-07-06 16:05:41.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:41.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:41.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:41.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:41.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:41.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:41.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:41.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:41.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:41.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:41.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:41.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.764][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:41.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:41.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.769][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:41.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:41.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.784][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:41.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:41.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.789][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:41.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:41.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:41.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:41.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:41.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:41.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.813][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.818][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.842][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.847][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.852][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.857][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.862][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.867][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.871][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:41.873][private$selectFields]
biodb.TRACE[2024-07-06 16:05:41.874][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:41.875][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:41.876][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:41.877][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:41.879][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:41.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.881][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.882][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:41.884][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:41.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.886][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.887][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.888][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.891][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.892][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:41.893][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:41.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.895][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.897][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:41.898][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:41.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.900][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.902][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.903][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.905][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.906][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.908][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.910][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.911][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.913][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.915][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.916][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.917][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.920][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.921][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.922][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.925][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.926][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.927][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.928][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.929][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.931][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.932][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.934][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.935][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:41.937][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:41.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.939][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.940][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:41.942][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:41.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.944][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.946][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:41.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.949][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.950][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:41.951][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:41.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.953][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.955][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:41.956][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:41.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.958][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.960][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.961][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:41.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.963][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.964][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.970][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:41.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.972][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.973][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.974][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:41.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.977][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.978][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.979][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:41.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.981][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.983][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.984][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:41.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.986][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.987][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:41.989][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:41.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.991][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.992][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:41.993][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:41.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:41.996][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:41.997][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:41.998][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:41.999][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.001][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.003][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.004][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.005][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.007][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.009][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.010][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.012][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.013][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.015][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.017][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.018][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.019][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.020][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.021][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.023][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.024][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.026][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.027][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.029][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.031][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.032][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.033][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.036][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.037][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.038][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.040][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.041][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:42.043][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:42.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.045][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.046][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:42.047][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:42.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.050][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.051][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:42.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.066][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.071][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.076][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.095][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.100][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.105][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.168][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.173][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.177][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.182][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:42.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:42.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.187][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:42.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:42.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:42.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:42.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.197][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:42.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:42.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.202][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:42.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:42.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.207][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:42.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:42.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.219][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [209892, 0, 209892, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-30(8)25-13-14-26-27(4,5)17-10-18-28(26,6)24(25)16-20-29(23,30)7/h11,13,22-24,26H,9-10,12,14-20H2,1-8H3/t22-,23+,24+,26+,28-,29+,30-/m1/s1, ...].
biodb.DEBUG[2024-07-06 16:05:42.220][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:42.221][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:42.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:42.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:42.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:42.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:42.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:42.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:42.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:42.240][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:42.244][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:42.246][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-07-06 16:05:42.248][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:42.249][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-07-06 16:05:42.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:42.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:42.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:42.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:42.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:42.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:42.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:42.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:42.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:42.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:42.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:42.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:42.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:42.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:42.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:42.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:42.310][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:42.314][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:42.316][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-07-06 16:05:42.317][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:42.319][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-07-06 16:05:42.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:42.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:42.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:42.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:42.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:42.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:42.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:42.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:42.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:42.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:42.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:42.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:42.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:42.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:42.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:42.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:42.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:42.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:42.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:42.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:42.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:42.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:42.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:42.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:42.412][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:42.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:42.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:42.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:42.422][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:42.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:42.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:42.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:42.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.437][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.442][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.457][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.462][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.467][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.472][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.477][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.487][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.492][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.518][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.522][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.527][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:42.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:42.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.532][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:42.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:42.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.537][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:42.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:42.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.542][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:42.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:42.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.547][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:42.548][private$selectFields]
biodb.TRACE[2024-07-06 16:05:42.550][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:42.551][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:42.552][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:42.553][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.554][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.557][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.558][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.559][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.562][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.563][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.564][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.567][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.568][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.569][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.572][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.573][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.574][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.577][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.578][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.579][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.582][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.583][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.584][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.587][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.588][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.589][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.592][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.593][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.595][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.598][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.599][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.600][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.602][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.604][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:42.605][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:42.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.607][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.608][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:42.610][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:42.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.612][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.613][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.615][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.617][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.618][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.619][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.623][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.624][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.626][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.628][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.629][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.631][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.632][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.634][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.636][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.637][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.639][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.641][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.642][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.643][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.646][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.647][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.648][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.651][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.652][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.653][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.655][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.657][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.658][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.660][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.661][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:42.663][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:42.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.665][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.666][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:42.667][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:42.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.670][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.671][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:42.672][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:42.673][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.675][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.677][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.678][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.679][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.682][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.683][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.684][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.687][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.688][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.689][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.691][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.693][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.694][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.696][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.697][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.699][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.701][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.702][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.703][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.705][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.706][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.707][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.708][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.711][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.712][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.713][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.715][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.716][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.718][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.720][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.721][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:42.723][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:42.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.725][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.726][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:42.727][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:42.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.730][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.731][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:42.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.747][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.752][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.757][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.777][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.781][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.790][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.795][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.800][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.805][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.810][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.815][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.820][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.825][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.829][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.834][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:42.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:42.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.869][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.878][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:42.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.883][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:42.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:42.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:42.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:42.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.893][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:42.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:42.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.898][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:42.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:42.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.903][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:42.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:42.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.908][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:42.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:42.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.921][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2024-07-06 16:05:42.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:42.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:42.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:42.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:42.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:42.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:42.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:42.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:42.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:42.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.945][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.949][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:42.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:42.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:42.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.964][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.969][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:42.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:42.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:42.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:42.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:42.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.993][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:42.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:42.998][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:42.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.022][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.027][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.032][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.042][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.047][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.052][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:43.053][private$selectFields]
biodb.TRACE[2024-07-06 16:05:43.055][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:43.056][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:43.057][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:43.058][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.060][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.062][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.063][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.065][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.067][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.068][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.072][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.073][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.075][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.077][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.078][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.079][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.082][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.083][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.084][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.087][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.088][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.089][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.092][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.093][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.094][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.097][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.098][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.099][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.102][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.103][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.104][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.107][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.108][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.109][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.111][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.113][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.114][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.116][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.118][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.119][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.121][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.123][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.124][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.126][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.128][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.129][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.131][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.133][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.134][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.136][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.138][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.139][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.141][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.143][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.144][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.146][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.147][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.149][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.151][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.153][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.154][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.156][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.158][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.159][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.161][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.163][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.164][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.166][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.168][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.169][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.171][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.173][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.174][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.176][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.178][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:43.179][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:43.180][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.181][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.184][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.185][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.187][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.189][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.190][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.192][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.198][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.199][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.201][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.203][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.204][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.205][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.208][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.209][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.210][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.212][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.213][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.215][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.217][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.218][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.219][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.222][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.223][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.224][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.226][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.227][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.229][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.231][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.232][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.233][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.236][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.237][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.238][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.240][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.242][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:43.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.257][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.262][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.267][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.286][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.291][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.296][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.305][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.330][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.334][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.339][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.373][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.378][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.383][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.388][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.392][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.402][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.407][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.412][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.425][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [16587, 0, 16587, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)9-8-22(31)26(5,33)21-7-11-27(34)16-12-18(28)17-13-19(29)20(30)14-24(17,3)15(16)6-10-25(21,27)4/h12,15,17,19-22,29-34H,6-11,13-14H2,1-5H3/t15-,17-,19+,20-,21-,22+,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2024-07-06 16:05:43.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:43.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:43.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:43.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:43.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:43.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:43.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:43.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.449][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.453][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.468][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.473][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.487][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.492][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.497][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.502][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.526][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.530][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.535][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.540][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.545][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.550][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.554][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:43.556][private$selectFields]
biodb.TRACE[2024-07-06 16:05:43.557][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:43.558][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:43.559][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:43.560][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.562][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.564][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.565][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.566][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.569][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.570][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.571][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.573][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.575][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.576][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.578][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.579][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.581][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.583][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.584][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.585][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.588][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.589][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.594][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.597][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.598][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.599][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.602][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.603][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.604][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.606][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.607][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.609][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.611][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.612][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.613][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.616][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.617][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.618][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.621][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.622][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.623][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.625][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.627][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.628][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.630][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.631][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.633][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.635][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.636][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.637][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.640][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.641][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.642][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.644][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.646][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.647][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.649][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.650][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.652][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:43.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.654][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.655][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.657][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.659][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.660][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.662][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.664][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.665][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.667][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.668][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.669][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.670][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.671][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.674][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.675][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.676][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.678][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.679][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:43.681][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:43.682][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.683][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.685][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.687][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.688][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.690][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.695][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.696][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.697][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.700][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.701][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.702][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.704][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.705][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.707][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.709][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.710][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.711][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.714][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.715][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.716][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.718][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.720][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.721][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.723][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.724][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.726][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.728][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.729][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.730][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.733][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.734][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:43.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:43.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:43.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.750][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.754][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.759][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:43.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:43.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:43.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.778][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.783][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.788][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:43.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:43.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:43.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:43.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:43.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:43.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.851][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.856][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.861][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:43.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.866][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.870][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.875][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:43.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:43.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.880][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.885][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.890][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:43.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:43.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.902][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [19804, 0, 19804, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)8-5-9-26(33,15-28)22-7-11-27(34)17-12-19(29)18-13-20(30)21(31)14-24(18,3)16(17)6-10-25(22,27)4/h12,16,18,20-22,28,30-34H,5-11,13-15H2,1-4H3/t16-,18-,20+,21-,22-,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2024-07-06 16:05:43.903][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:43.904][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:43.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:43.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:43.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:43.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:43.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:43.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:43.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:43.924][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:43.928][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:43.929][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-07-06 16:05:43.931][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:43.932][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-07-06 16:05:43.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:43.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:43.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:43.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:43.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:43.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:43.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:43.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:43.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:43.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:43.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:43.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:43.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:43.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:43.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:43.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:43.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:43.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:43.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:43.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:43.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:43.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:44.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:44.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:44.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:44.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:44.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:44.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:44.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:44.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:44.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:44.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:44.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:44.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:44.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:44.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:44.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:44.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:44.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:44.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:44.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:44.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:44.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:44.079][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:44.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:44.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:44.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:44.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:44.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:44.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:44.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:44.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:44.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:44.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:44.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:44.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:44.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:44.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:44.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:44.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:44.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:44.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:44.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:44.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:44.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:44.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:44.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:44.176][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:44.180][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:44.182][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-07-06 16:05:44.184][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:44.185][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-07-06 16:05:44.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:44.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:44.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:44.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:44.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:44.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:44.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:44.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:44.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:44.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:44.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:44.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:44.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:44.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:44.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:44.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:44.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:44.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:44.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:44.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:44.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:44.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:44.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:44.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:44.272][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:44.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:44.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:44.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:44.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:44.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:44.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:44.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:44.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:44.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:44.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:44.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:44.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.297][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:44.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:44.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.302][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:44.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:44.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.316][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:44.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:44.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.321][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:44.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:44.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.326][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:44.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:44.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:44.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:44.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.340][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.345][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.350][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.374][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.379][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.384][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:44.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:44.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.389][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:44.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:44.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.394][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:44.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:44.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.398][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:44.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:44.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.403][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:44.404][private$selectFields]
biodb.TRACE[2024-07-06 16:05:44.405][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:44.407][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:44.408][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:44.409][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:44.410][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:44.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.413][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.414][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:44.415][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:44.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.417][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.419][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.424][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.426][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.428][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:44.429][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:44.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.431][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.432][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:44.434][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:44.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.436][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.437][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.438][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.440][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.442][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.443][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.445][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.446][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.448][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.450][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.451][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.452][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.455][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.456][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.457][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.459][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.460][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:44.462][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:44.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.464][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.465][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:44.466][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:44.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.469][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.470][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:44.471][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:44.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.473][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.475][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:44.476][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:44.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.478][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.479][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.481][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.483][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.484][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:44.485][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:44.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.487][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.489][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:44.490][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:44.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.492][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.493][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.495][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.497][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.498][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.499][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.502][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.503][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.504][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.505][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.506][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.507][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.509][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.511][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.512][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.513][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.516][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.517][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:44.518][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:44.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.520][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.521][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:44.523][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:44.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.525][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.526][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:44.527][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:44.529][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:44.530][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:44.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.532][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.533][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:44.535][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:44.536][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.537][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.539][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.541][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.543][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:44.544][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:44.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.546][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.547][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:44.549][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:44.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.551][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.552][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.553][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.555][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.557][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.558][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.560][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.561][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.563][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.565][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.566][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.567][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.569][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.571][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.572][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.574][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.575][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:44.577][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:44.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.579][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.580][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:44.581][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:44.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.583][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.585][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:44.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:44.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:44.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:44.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:44.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:44.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:44.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.600][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:44.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:44.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.605][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:44.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:44.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.610][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:44.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:44.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.630][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:44.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:44.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:44.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:44.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.639][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:44.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:44.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:44.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:44.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.649][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:44.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:44.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.654][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:44.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:44.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.659][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.673][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.678][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.683][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.717][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.722][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.727][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:44.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:44.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.737][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:44.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:44.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:44.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:44.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.747][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:44.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:44.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.752][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:44.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:44.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.756][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:44.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:44.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.769][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [7799, 0, 7799, C16H31N2O8P, InChI=1S/C16H28N2O4.H3O4P/c1-5-12(6-2)22-14-9-11(16(20)21-7-3)8-13(17)15(14)18-10(4)19;1-5(2,3)4/h9,12-15H,5-8,17H2,1-4H3,(H,18,19);(H3,1,2,3,4)/t13-,14+,15+;/m0./s1, ...].
biodb.DEBUG[2024-07-06 16:05:44.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:44.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:44.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:44.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:44.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:44.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:44.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:44.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:44.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:44.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:44.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:44.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.793][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:44.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:44.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.798][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:44.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:44.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.813][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:44.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:44.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.822][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:44.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:44.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:44.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:44.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:44.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:44.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.841][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.846][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.850][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.879][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:44.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:44.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:44.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:44.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.893][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:44.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:44.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.898][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:44.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:44.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.903][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:44.904][private$selectFields]
biodb.TRACE[2024-07-06 16:05:44.905][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:44.906][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:44.907][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:44.909][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:44.910][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:44.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.912][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.913][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:44.915][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:44.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.917][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.919][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.922][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.923][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:44.924][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:44.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.926][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.927][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:44.929][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:44.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.931][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.932][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.933][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.936][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.937][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.938][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.940][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.942][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.943][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.945][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.946][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.948][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:44.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.950][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.951][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.952][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:44.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.954][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.956][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:44.957][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:44.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.959][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.960][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:44.962][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:44.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.964][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.965][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:44.966][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:44.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.969][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.970][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:44.971][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:44.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.973][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.975][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.976][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:44.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.978][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.979][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:44.981][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:44.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.983][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.984][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:44.985][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:44.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.988][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.989][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.990][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:44.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.992][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.993][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.995][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:44.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:44.997][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:44.998][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:44.999][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.001][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.002][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.003][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.004][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.007][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.008][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.010][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.012][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.013][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.015][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.017][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.018][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.020][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.022][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.023][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:45.025][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:45.026][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.027][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.030][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.031][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.032][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.035][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.036][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.037][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.040][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.041][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.042][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.045][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.046][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.047][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.049][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.051][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.052][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.054][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.055][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.057][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.059][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.060][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.061][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.064][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.065][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.066][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.069][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.070][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.071][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.074][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.075][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.076][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.078][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.080][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:45.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.096][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.101][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.105][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.125][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.130][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.155][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.200][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.205][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.209][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.215][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.224][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.229][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.234][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.239][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.244][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.256][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [71954, 0, 71954, C18H21F3N6O2, InChI=1S/C18H21F3N6O2/c19-18(20,21)13-9-15(22)23-11-12(13)14-10-16(26-1-5-28-6-2-26)25-17(24-14)27-3-7-29-8-4-27/h9-11H,1-8H2,(H2,22,23), ...].
biodb.DEBUG[2024-07-06 16:05:45.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:45.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:45.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:45.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:45.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:45.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:45.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:45.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.280][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.285][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.299][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.304][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.328][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:45.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:45.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.333][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:45.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:45.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.358][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.362][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.372][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.377][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.382][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.387][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:45.388][private$selectFields]
biodb.TRACE[2024-07-06 16:05:45.389][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:45.390][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:45.391][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:45.393][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.394][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.396][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.397][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.399][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.401][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.402][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.404][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.406][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.407][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.408][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.411][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.412][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.413][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.415][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.417][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.418][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.420][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.422][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:45.423][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:45.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.425][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.426][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.428][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.430][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.431][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.433][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.435][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.436][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.437][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.440][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.441][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.442][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.445][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.446][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.447][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.449][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.451][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.452][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.454][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.455][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.457][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.459][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.460][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.462][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.464][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.465][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.467][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.469][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.470][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.471][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.474][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.475][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.476][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.479][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.480][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:45.481][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:45.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.484][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.485][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.486][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.489][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.490][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.492][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.494][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.495][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.497][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.499][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.501][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.502][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.504][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.506][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.507][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.509][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.510][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:45.512][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:45.513][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.514][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.517][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.518][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.519][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.521][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.523][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.524][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.526][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.527][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.529][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.531][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.532][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.533][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.536][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.537][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.538][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.541][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.542][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.543][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.545][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.547][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.548][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.550][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.551][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.553][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.555][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.556][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.558][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.560][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.561][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.562][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.565][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.566][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:45.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.582][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.587][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.592][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.612][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.617][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.627][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.632][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.637][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.692][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.697][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.702][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.707][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.712][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.717][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:45.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:45.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.723][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.728][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.732][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:45.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:45.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.745][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [197612, 0, 197612, C18H18O9S, InChI=1S/C18H18O9S/c1-7-3-9(19)13-11(4-7)27-16-8(14(13)21)5-12(28-16)18(25,17(24)26-2)6-10(20)15(22)23/h3-4,10,12,19-20,25H,5-6H2,1-2H3,(H,22,23)/t10-,12+,18?/m1/s1, ...].
biodb.DEBUG[2024-07-06 16:05:45.746][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:45.748][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:45.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:45.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:45.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:45.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:45.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:45.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:45.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:45.774][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:45.778][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:45.780][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-06 16:05:45.781][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:45.783][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-06 16:05:45.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:45.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:45.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:45.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:45.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:45.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:45.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:45.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:45.816][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:45.820][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:45.822][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-06 16:05:45.823][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:45.825][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-06 16:05:45.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:45.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:45.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:45.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:45.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:45.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:45.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:45.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:45.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:45.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:45.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:45.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:45.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:45.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:45.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:45.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:45.887][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:45.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:45.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:45.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:45.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:45.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:45.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:45.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:45.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:45.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:45.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.912][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.917][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:45.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:45.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:45.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.933][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.938][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:45.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:45.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:45.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:45.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:45.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.962][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:45.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:45.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.967][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:45.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:45.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:45.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:45.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.993][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:45.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:45.998][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:45.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.003][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.013][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.018][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.023][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.029][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.034][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:46.035][private$selectFields]
biodb.TRACE[2024-07-06 16:05:46.036][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:46.037][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:46.038][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:46.040][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.041][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.044][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.049][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.051][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.053][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.054][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.055][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.058][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.059][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.060][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.063][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.064][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.065][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.068][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.069][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.070][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.072][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.074][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.075][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.077][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.078][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.080][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.082][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.084][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.085][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.087][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.089][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.090][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.092][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.094][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.095][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.097][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.099][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.100][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.101][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.102][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.103][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.105][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.107][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.108][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.110][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.111][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.112][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.113][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.115][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.117][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.118][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.119][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.122][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.123][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.124][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.127][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.128][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.129][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.132][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.133][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.134][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.136][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.138][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.139][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.141][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.143][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.144][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.146][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.148][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.149][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.151][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.152][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.154][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.156][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.158][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.159][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.161][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.162][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.164][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.166][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.167][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.169][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.171][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.172][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:46.174][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:46.175][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.176][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.179][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.181][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.182][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.184][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.186][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.189][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.190][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.192][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.194][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.195][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.197][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.199][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.200][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.201][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.204][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.205][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.206][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.209][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.210][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.211][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.213][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.215][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.216][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.218][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.219][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.221][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.223][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.224][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.226][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.228][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.229][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:46.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.246][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.250][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.255][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.276][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.280][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.285][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.305][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.350][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.355][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.360][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.365][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.375][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.380][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.385][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.390][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.402][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [192288, 0, 192288, C27H54O2, InChI=1S/C27H54O2/c1-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21-22-23-24-25-26-27(28)29-2/h3-26H2,1-2H3, ...].
biodb.DEBUG[2024-07-06 16:05:46.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:46.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:46.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:46.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:46.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:46.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:46.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:46.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.427][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.432][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.447][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.451][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.461][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.466][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.480][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.485][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.510][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.515][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.524][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.529][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.534][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.539][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.544][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.549][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:46.550][private$selectFields]
biodb.TRACE[2024-07-06 16:05:46.551][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:46.552][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:46.553][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:46.555][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.556][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.558][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.560][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.561][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.563][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.564][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.566][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.568][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.569][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.571][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.573][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.574][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.576][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.578][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.579][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.580][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.583][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.584][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.585][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.588][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.589][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.590][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.593][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.594][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.595][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.597][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.599][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.600][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.602][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.603][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.605][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.607][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.608][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.610][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.612][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.613][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.614][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.617][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.618][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.619][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.623][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.624][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.627][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.628][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.629][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.632][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.633][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.634][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.636][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.638][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.639][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.641][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.642][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.644][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.646][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.647][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.649][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.651][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.652][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.654][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.656][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.657][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.659][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.661][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.662][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.663][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.666][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.667][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.668][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.671][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.672][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.673][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.676][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.677][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.678][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:46.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.681][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.682][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:46.683][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:46.684][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.686][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.688][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.689][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.691][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.693][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.694][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.695][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.698][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.699][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.700][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.703][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.704][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.706][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.708][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.709][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.710][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.713][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.714][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.715][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.716][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.718][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.719][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.720][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.723][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.724][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.725][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.728][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.729][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.730][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.733][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.734][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.735][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.737][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.739][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.740][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.742][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.743][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:46.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.759][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.764][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.769][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.789][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.793][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.798][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.823][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.832][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.837][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.842][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:46.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:46.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:46.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.881][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.886][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.891][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:46.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.896][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.901][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.906][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:46.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:46.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.911][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.915][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.920][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:46.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:46.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.933][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2024-07-06 16:05:46.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:46.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:46.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:46.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:46.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:46.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:46.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:46.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:46.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:46.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.956][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.961][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:46.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:46.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:46.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.980][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:46.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:46.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.990][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:46.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:46.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:46.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:46.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:46.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.004][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.009][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.033][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.038][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.042][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.052][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.057][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.062][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.067][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.071][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:47.073][private$selectFields]
biodb.TRACE[2024-07-06 16:05:47.074][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:47.075][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:47.076][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:47.077][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.079][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.081][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.082][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.083][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.086][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.087][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.088][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.090][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.092][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:47.093][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:47.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.095][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.096][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:47.098][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:47.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.100][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.101][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.102][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.104][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.105][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.106][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.107][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.109][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.111][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.112][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.114][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.115][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.117][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.119][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.120][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.121][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.124][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.125][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.126][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.128][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.130][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.131][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.133][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.134][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.136][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.138][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.139][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.140][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.143][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.144][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.145][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.147][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.149][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.150][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.152][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.153][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:47.155][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:47.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.157][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.158][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:47.159][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:47.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.162][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.163][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.164][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.167][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.168][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.169][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.171][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.173][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.174][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.176][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.177][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.179][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.181][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.182][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.183][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.186][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.187][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.188][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.190][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.192][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.193][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.195][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.196][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.198][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.200][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.201][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:47.202][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:47.204][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.205][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.207][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.208][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.210][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.212][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.213][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.214][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.217][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.218][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:47.219][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:47.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.221][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.223][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:47.224][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:47.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.226][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.227][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.229][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.231][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.232][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.233][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.236][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.237][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.238][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.240][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.242][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.243][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.245][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.247][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.248][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.250][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.251][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.257][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.260][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.261][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:47.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.277][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.282][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.287][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.306][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:47.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:47.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.311][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:47.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:47.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.316][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:47.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:47.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:47.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:47.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:47.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:47.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:47.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:47.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.340][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.379][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.383][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.388][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.393][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.402][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.407][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.412][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.417][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.429][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [209892, 0, 209892, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-30(8)25-13-14-26-27(4,5)17-10-18-28(26,6)24(25)16-20-29(23,30)7/h11,13,22-24,26H,9-10,12,14-20H2,1-8H3/t22-,23+,24+,26+,28-,29+,30-/m1/s1, ...].
biodb.DEBUG[2024-07-06 16:05:47.430][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:47.431][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:47.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:47.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:47.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:47.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:47.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:47.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:47.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:47.450][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:47.454][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:47.455][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-07-06 16:05:47.457][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:47.459][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-07-06 16:05:47.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:47.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:47.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:47.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:47.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:47.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:47.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:47.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:47.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:47.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:47.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:47.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:47.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:47.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:47.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:47.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:47.517][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:47.521][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:47.522][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-07-06 16:05:47.524][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:47.525][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-07-06 16:05:47.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:47.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:47.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:47.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:47.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:47.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:47.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:47.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:47.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:47.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:47.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:47.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:47.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:47.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:47.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:47.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:47.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:47.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:47.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:47.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:47.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:47.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:47.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:47.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:47.611][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:47.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:47.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:47.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:47.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:47.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:47.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:47.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:47.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.636][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.641][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.655][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:47.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:47.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.665][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:47.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:47.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:47.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:47.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.675][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:47.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:47.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.679][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.684][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.689][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.694][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.718][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.723][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.737][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.742][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.747][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.752][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.757][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:47.759][private$selectFields]
biodb.TRACE[2024-07-06 16:05:47.760][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:47.761][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:47.762][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:47.763][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.765][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.767][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.768][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.770][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.772][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.773][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.775][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.777][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.778][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:47.779][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:47.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.782][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.783][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:47.784][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:47.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.787][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.788][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.789][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.792][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.793][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.794][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.797][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.798][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.800][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.802][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.803][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.805][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.807][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.808][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.810][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.812][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.813][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.815][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.817][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.818][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.820][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.822][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.823][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.825][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.827][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.828][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.830][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.832][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.833][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.834][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.837][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.838][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.839][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.842][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.843][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:47.844][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:47.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.847][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.848][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:47.849][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:47.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.851][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.853][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.854][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.856][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.858][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.859][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.861][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.862][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.864][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.866][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.867][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.869][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.871][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.872][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.874][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.876][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.877][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.879][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.881][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.882][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.884][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.886][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.887][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.889][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:47.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.891][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.892][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:47.894][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:47.895][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.896][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.898][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.900][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.901][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.903][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.905][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.906][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.908][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.909][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:47.911][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:47.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.913][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.914][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:47.916][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:47.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.918][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.919][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.920][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:47.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.923][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.924][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.925][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:47.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.928][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.929][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.930][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:47.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.933][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.934][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.935][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:47.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.937][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.939][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.940][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:47.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.942][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.944][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:47.945][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:47.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.947][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.948][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:47.950][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:47.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.952][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.953][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:47.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:47.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:47.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.970][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.975][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.980][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:47.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:47.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:47.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:47.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:47.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.000][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.005][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.025][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.046][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.051][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.056][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.095][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.100][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.105][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.110][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.120][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.125][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.130][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.135][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.148][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2024-07-06 16:05:48.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:48.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:48.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:48.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:48.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:48.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:48.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:48.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.171][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.176][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.191][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.196][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.201][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.220][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.225][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.250][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.255][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.259][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.264][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.269][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.274][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.279][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.284][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.289][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:48.290][private$selectFields]
biodb.TRACE[2024-07-06 16:05:48.291][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:48.293][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:48.294][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:48.295][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.296][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.299][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.300][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.301][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.304][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.305][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.306][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.309][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.310][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.311][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.314][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.315][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.316][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.319][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.320][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.321][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.324][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.325][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.326][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.329][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.330][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.331][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.334][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.335][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.336][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.337][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.338][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.340][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.341][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.343][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.345][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.346][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.348][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.349][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.351][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.353][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.354][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.356][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.358][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.359][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.361][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.363][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.364][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.365][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.368][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.369][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.370][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.373][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.374][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.375][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.378][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.379][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.380][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.382][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.384][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.385][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.387][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.389][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.390][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.392][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.393][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.395][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.397][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.398][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.400][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.402][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.403][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.404][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.407][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.408][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.409][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.412][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.413][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.414][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.417][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.418][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.419][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.421][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.423][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:48.424][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:48.425][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.426][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.429][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.430][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.431][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.434][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.435][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.436][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.438][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.440][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.441][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.443][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.445][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.446][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.448][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.449][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.451][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.453][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.454][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.456][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.458][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.459][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.461][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.463][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.464][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.466][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.473][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.474][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.475][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.477][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.479][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.480][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.482][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.484][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.485][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.487][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.488][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:48.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.505][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.510][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.515][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.536][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.541][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.546][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.556][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.571][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.581][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.586][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.591][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.625][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.630][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.635][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.640][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.645][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.650][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.655][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.660][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.665][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.678][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [16587, 0, 16587, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)9-8-22(31)26(5,33)21-7-11-27(34)16-12-18(28)17-13-19(29)20(30)14-24(17,3)15(16)6-10-25(21,27)4/h12,15,17,19-22,29-34H,6-11,13-14H2,1-5H3/t15-,17-,19+,20-,21-,22+,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2024-07-06 16:05:48.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:48.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:48.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:48.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:48.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:48.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:48.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:48.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.702][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.707][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.722][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.727][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.742][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.747][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.752][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.757][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.782][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.787][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.792][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.797][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.802][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.807][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.812][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.816][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.821][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:48.822][private$selectFields]
biodb.TRACE[2024-07-06 16:05:48.824][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:48.825][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:48.826][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:48.827][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.831][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.832][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.833][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.836][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.837][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.838][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.841][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.842][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.843][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.845][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.847][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.848][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.850][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.851][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.853][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.855][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.856][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.857][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.860][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.861][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.862][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.865][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.866][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.867][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.869][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.871][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.872][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.879][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.880][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.881][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.884][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.885][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.886][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.889][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.890][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.891][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.893][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.895][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.896][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.898][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.899][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.901][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.903][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.904][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.905][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.908][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.909][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.910][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.912][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.914][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.915][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.917][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.918][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.920][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.922][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.923][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.925][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:48.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.927][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.928][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.929][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.932][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.933][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.934][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.936][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.938][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.939][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.940][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.941][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.942][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:48.944][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:48.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.946][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.947][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:48.948][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:48.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.951][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.952][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.953][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:48.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.956][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.957][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:48.958][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:48.959][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:48.961][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:48.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.963][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.964][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:48.965][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:48.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.968][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.969][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.970][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:48.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.972][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.974][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:48.975][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:48.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.977][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.979][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:48.980][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:48.981][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.982][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.983][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.985][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:48.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.987][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.988][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.990][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:48.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.992][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.993][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.994][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:48.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:48.997][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:48.998][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:48.999][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.002][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.003][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:49.004][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:49.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.006][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.008][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:49.009][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:49.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.011][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.013][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:49.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:49.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:49.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:49.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:49.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:49.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:49.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.029][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:49.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:49.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.034][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:49.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:49.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.039][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:49.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:49.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.060][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:49.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:49.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.065][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:49.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:49.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.070][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:49.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:49.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.075][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:49.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:49.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.080][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:49.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:49.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.085][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:49.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:49.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.090][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.134][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.139][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.143][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:49.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:49.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:49.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:49.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:49.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:49.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.163][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:49.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:49.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.168][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:49.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:49.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.173][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:49.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:49.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.185][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [19804, 0, 19804, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)8-5-9-26(33,15-28)22-7-11-27(34)17-12-19(29)18-13-20(30)21(31)14-24(18,3)16(17)6-10-25(22,27)4/h12,16,18,20-22,28,30-34H,5-11,13-15H2,1-4H3/t16-,18-,20+,21-,22-,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2024-07-06 16:05:49.187][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:49.188][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:49.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:49.207][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:49.211][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:49.213][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-07-06 16:05:49.214][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:49.216][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-07-06 16:05:49.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:49.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:49.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:49.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:49.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:49.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:49.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.313][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:49.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:49.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:49.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:49.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:49.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:49.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:49.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:49.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:49.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:49.445][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:49.449][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:49.451][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-07-06 16:05:49.452][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:49.454][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-07-06 16:05:49.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:49.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:49.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.493][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:49.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:49.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:49.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:49.542][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:49.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:49.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:49.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:49.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:49.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:49.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:49.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:49.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:49.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:49.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:49.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:49.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.566][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:49.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:49.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.571][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:49.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:49.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.585][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:49.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:49.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.590][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:49.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:49.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:49.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:49.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:49.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:49.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.614][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.619][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.644][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.649][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.654][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:49.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:49.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.659][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:49.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:49.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.664][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:49.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:49.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.669][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:49.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:49.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.673][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:49.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:49.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.678][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:49.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:49.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.683][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:49.684][private$selectFields]
biodb.TRACE[2024-07-06 16:05:49.685][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:49.686][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:49.688][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:49.689][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:49.698][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:49.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.700][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.701][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:49.703][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:49.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.705][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.706][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.707][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.710][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.711][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:49.712][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:49.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.714][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.716][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:49.717][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:49.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.719][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.720][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.722][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.724][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.725][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.726][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.729][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.730][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.731][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.733][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.734][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.736][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.738][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.739][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.740][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.743][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.744][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:49.745][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:49.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.747][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.749][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:49.750][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:49.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.752][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.753][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:49.755][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:49.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.757][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.758][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:49.759][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:49.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.761][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.763][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:49.764][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:49.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.766][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.767][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.769][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.771][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.772][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:49.773][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:49.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.776][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.777][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:49.778][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:49.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.780][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.781][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.783][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.785][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.786][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.787][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.790][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.791][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.792][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.794][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.796][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.797][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.799][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.800][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.802][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.804][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.805][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:49.806][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:49.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.809][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.810][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:49.811][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:49.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.813][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.815][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:49.816][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:49.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.818][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.819][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:49.820][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:49.822][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:49.823][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:49.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.825][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.826][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:49.828][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:49.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.830][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.831][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.835][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.836][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:49.837][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:49.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.839][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.840][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:49.842][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:49.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.844][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.845][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.846][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.849][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.850][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.851][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.853][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.855][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.856][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.858][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.859][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.861][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.863][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.864][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.865][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:49.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.868][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.869][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:49.870][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:49.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.872][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.873][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:49.875][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:49.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.877][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.878][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:49.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:49.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:49.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:49.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:49.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:49.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:49.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.894][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:49.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:49.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.899][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:49.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:49.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.904][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:49.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:49.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:49.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.924][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:49.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:49.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.928][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:49.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:49.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.933][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:49.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:49.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:49.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:49.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:49.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:49.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:49.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:49.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:49.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.967][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.972][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.977][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:49.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:49.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:49.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:49.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:49.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.011][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.016][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.021][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.026][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.031][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.035][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.040][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.045][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.050][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.063][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [7799, 0, 7799, C16H31N2O8P, InChI=1S/C16H28N2O4.H3O4P/c1-5-12(6-2)22-14-9-11(16(20)21-7-3)8-13(17)15(14)18-10(4)19;1-5(2,3)4/h9,12-15H,5-8,17H2,1-4H3,(H,18,19);(H3,1,2,3,4)/t13-,14+,15+;/m0./s1, ...].
biodb.DEBUG[2024-07-06 16:05:50.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:50.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:50.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:50.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:50.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:50.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:50.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:50.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.087][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.097][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.111][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.116][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.135][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.140][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.145][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.169][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.174][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.178][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.183][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.188][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.193][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.198][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.203][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.208][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:50.209][private$selectFields]
biodb.TRACE[2024-07-06 16:05:50.210][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:50.211][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:50.213][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:50.214][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.215][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.218][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.219][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.220][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.222][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.224][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.225][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.228][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.229][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.230][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.233][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.234][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.235][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.238][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.239][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.240][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.242][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.244][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.245][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.247][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.248][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.250][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.252][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.253][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.254][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.257][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.258][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.259][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.261][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.263][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.264][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.266][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.267][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.269][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.271][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.272][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.273][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.276][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.277][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.278][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.281][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.282][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.283][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.285][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.286][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.288][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.290][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.291][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.293][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.295][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.296][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.297][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.300][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.301][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.302][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.303][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.305][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.306][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.307][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.309][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.311][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.312][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.314][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.315][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.317][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.319][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.320][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.321][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.324][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.325][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.326][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.329][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.330][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.331][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.333][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.335][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.336][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.337][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.338][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.339][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:50.341][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:50.342][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.343][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.345][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.347][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.348][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.350][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.351][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.353][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.355][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.356][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.358][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.360][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.361][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.362][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.365][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.366][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.367][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.368][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.369][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.371][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.372][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.374][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.375][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.377][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.379][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.380][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.382][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.383][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.384][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.385][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.386][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.389][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.390][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.391][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.393][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.395][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:50.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.411][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.416][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.421][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.441][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.446][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.451][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.456][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.461][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.466][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.520][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.524][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.529][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.544][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.549][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.553][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.558][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.570][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [71954, 0, 71954, C18H21F3N6O2, InChI=1S/C18H21F3N6O2/c19-18(20,21)13-9-15(22)23-11-12(13)14-10-16(26-1-5-28-6-2-26)25-17(24-14)27-3-7-29-8-4-27/h9-11H,1-8H2,(H2,22,23), ...].
biodb.DEBUG[2024-07-06 16:05:50.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:50.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:50.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:50.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:50.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:50.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:50.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:50.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.593][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.598][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.612][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.617][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.622][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.632][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.641][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.646][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.670][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.675][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.680][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.685][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.690][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.695][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.700][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.705][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.710][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:50.719][private$selectFields]
biodb.TRACE[2024-07-06 16:05:50.720][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:50.722][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:50.723][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:50.725][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.726][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.728][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.730][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.731][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.734][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.735][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.736][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.738][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.739][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.740][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.745][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.748][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.749][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.750][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.753][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.754][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.759][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.762][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.763][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.764][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.767][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.768][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.769][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.773][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.775][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.776][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.778][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.780][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.781][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.783][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.785][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.786][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.789][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.790][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.791][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.794][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.795][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.796][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.799][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.802][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.804][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.807][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.809][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.811][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.815][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.817][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.819][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.822][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.823][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.825][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.828][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.830][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.832][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.835][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.837][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.839][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.842][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.843][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.845][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:50.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.847][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.848][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.850][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.852][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.853][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.854][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.857][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.858][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.859][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.862][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.863][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.864][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.867][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.868][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.869][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.872][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.873][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.874][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:50.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.879][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.881][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:50.882][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:50.883][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.884][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.887][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.888][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:50.889][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:50.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.892][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.893][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.894][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:50.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.902][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.903][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:50.905][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:50.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.912][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.913][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:50.915][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:50.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.917][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.946][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.947][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:50.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.950][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.951][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.956][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:50.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.958][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.960][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.961][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:50.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.963][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.965][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.966][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:50.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.968][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.970][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:50.971][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:50.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.979][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.980][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:50.981][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:50.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.984][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.985][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:50.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:50.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:50.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:50.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:50.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.002][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.007][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.012][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.035][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.040][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.045][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.050][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.055][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.071][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.114][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.120][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.125][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:51.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:51.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.136][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:51.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:51.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.142][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:51.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:51.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.147][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:51.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:51.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.152][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:51.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:51.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.157][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:51.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:51.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.170][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [197612, 0, 197612, C18H18O9S, InChI=1S/C18H18O9S/c1-7-3-9(19)13-11(4-7)27-16-8(14(13)21)5-12(28-16)18(25,17(24)26-2)6-10(20)15(22)23/h3-4,10,12,19-20,25H,5-6H2,1-2H3,(H,22,23)/t10-,12+,18?/m1/s1, ...].
biodb.DEBUG[2024-07-06 16:05:51.171][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:51.172][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-06 16:05:51.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:51.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:51.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:51.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:51.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:51.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:51.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:51.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:51.261][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:51.266][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:51.268][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-06 16:05:51.269][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:51.271][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-06 16:05:51.275][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:51.279][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:51.281][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-06 16:05:51.282][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:51.284][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-06 16:05:51.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:51.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:51.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:51.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:51.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:51.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:51.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:51.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:51.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:51.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:51.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:51.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:51.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:51.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:51.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:51.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:51.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:51.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:51.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:51.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:51.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:51.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:51.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:51.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:51.377][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:51.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:51.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:51.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:51.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:51.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:51.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:51.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:51.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:51.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:51.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:51.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:51.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.402][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.407][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.427][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.432][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.447][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.452][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.457][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.462][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.487][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.492][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.497][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:51.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:51.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.502][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:51.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:51.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.507][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:51.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:51.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.512][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:51.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:51.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.516][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:51.518][private$selectFields]
biodb.TRACE[2024-07-06 16:05:51.519][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:51.520][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:51.521][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:51.523][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:51.524][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:51.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.526][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.528][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.529][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.531][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.533][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.534][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.536][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.538][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.539][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.541][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.543][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.544][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.547][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.548][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.550][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.553][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.554][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.555][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.558][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.559][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.560][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.563][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.564][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.565][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.568][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.569][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.570][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.572][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.574][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:51.575][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:51.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.577][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.578][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:51.580][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:51.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.582][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.583][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:51.584][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:51.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.587][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.588][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.589][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.592][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.593][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.594][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.596][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.598][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.599][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.601][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.602][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.604][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.606][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.607][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.609][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.611][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.612][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.613][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.616][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.617][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.618][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.621][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.622][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.623][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.626][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.627][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.628][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.630][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.632][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:51.633][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:51.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.635][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.636][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:51.638][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:51.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.640][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.641][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:51.643][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:51.644][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:51.645][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:51.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.647][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.649][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.650][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.652][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.653][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.655][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.657][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.658][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.660][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.662][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.663][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.664][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.667][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.668][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.669][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.672][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.673][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.674][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.677][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.678][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.679][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.682][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.683][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.684][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.687][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.688][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.689][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.691][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.693][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:51.694][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:51.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.697][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.698][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:51.699][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:51.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.702][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.703][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:51.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:51.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:51.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:51.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:51.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:51.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:51.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.720][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.725][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.730][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.751][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.756][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.761][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.766][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.771][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.782][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.797][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.802][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.807][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.848][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.853][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.858][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:51.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:51.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:51.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.868][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:51.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:51.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.873][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:51.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:51.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.878][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:51.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:51.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.883][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:51.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:51.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.888][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:51.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:51.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.901][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4648, 0, 4648, C30H50, InChI=1S/C30H50/c1-20(2)21-12-17-27(5)22(21)13-18-29(7)24(27)10-11-25-28(6)16-9-15-26(3,4)23(28)14-19-30(25,29)8/h21-25H,1,9-19H2,2-8H3/t21-,22+,23+,24-,25-,27+,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2024-07-06 16:05:51.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:51.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:51.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:51.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:51.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:51.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:51.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:51.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:51.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:51.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:51.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:51.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.925][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.930][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:51.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:51.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:51.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.944][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.949][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:51.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:51.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.954][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:51.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:51.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:51.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.973][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.978][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:51.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:51.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:51.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:51.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:51.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.002][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.007][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.012][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.021][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.026][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.031][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:52.032][private$selectFields]
biodb.TRACE[2024-07-06 16:05:52.033][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:52.035][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:52.036][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:52.037][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.038][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.041][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.042][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.043][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.045][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.047][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.048][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.050][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.051][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.053][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.055][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.056][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.057][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.060][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.061][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.062][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.065][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.066][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.067][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.069][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.071][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.072][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.074][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.075][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.077][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.079][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.080][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.081][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.084][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.085][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.086][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.089][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.090][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.091][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.093][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.095][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.096][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.098][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.099][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.101][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.103][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.104][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.105][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.108][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.109][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.110][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.111][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.112][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.114][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.115][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.117][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.118][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.120][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.122][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.123][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.125][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.127][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.128][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.129][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.132][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.133][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.134][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.137][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.138][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.139][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.141][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.143][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.144][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.146][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.147][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.149][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.151][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.152][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:52.154][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:52.155][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.156][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.158][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.159][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.161][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.163][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.164][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.166][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.168][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.169][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.170][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.173][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.174][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.175][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.178][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.179][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.180][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.182][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.184][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.185][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.187][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.188][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.190][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.192][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.193][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.194][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.197][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.198][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.199][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.202][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.203][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.204][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.206][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.208][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.209][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.211][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.212][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:52.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.234][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.239][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.244][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.264][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.269][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.273][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.293][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.308][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.313][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.318][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.353][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.358][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.363][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.373][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.378][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.383][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.392][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.405][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2024-07-06 16:05:52.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:52.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:52.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:52.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:52.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:52.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:52.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:52.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.431][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.436][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.451][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.456][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.461][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.466][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.472][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.477][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.482][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.486][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.511][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.516][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.521][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.525][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.530][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.535][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.540][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:52.541][private$selectFields]
biodb.TRACE[2024-07-06 16:05:52.542][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:52.543][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:52.544][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:52.546][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.547][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.549][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.551][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.552][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.554][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.555][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.557][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.559][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.560][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.561][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.564][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.565][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.566][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.568][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.570][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.571][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.573][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.574][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.576][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.578][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.579][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.580][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.583][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.584][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.585][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.588][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.589][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.590][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.592][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.594][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.595][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.597][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.598][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.600][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.602][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.603][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.604][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.607][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.608][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.609][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.612][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.613][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.614][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.617][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.618][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.619][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.623][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.624][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.626][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.633][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.634][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.637][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.638][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.639][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:52.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.642][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.643][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.645][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.647][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.648][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.650][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.652][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.653][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.655][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.657][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.658][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.660][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.662][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.663][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.664][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.667][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.668][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:52.669][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:52.670][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.671][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.674][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.675][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.676][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.678][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.680][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.681][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.683][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.684][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.686][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.688][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.689][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.690][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.693][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.694][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.695][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.697][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.698][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.700][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.702][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.703][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.704][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.707][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.708][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.709][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.712][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.713][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.714][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.716][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.717][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.719][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.721][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.722][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:52.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:52.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:52.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.739][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.744][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.748][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:52.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:52.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:52.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.768][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.773][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.778][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:52.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:52.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:52.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:52.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.802][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.807][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:52.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:52.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.841][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.846][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.851][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:52.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.856][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.861][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.865][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:52.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:52.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.870][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.875][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.880][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:52.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:52.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.892][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [62447, 0, 62447, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-29(7)24(23)13-14-26-28(6)18-10-17-27(4,5)25(28)16-20-30(26,29)8/h11,23-26H,3,9-10,12-20H2,1-2,4-8H3/t23-,24-,25+,26-,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2024-07-06 16:05:52.894][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:52.895][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:52.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:52.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:52.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:52.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:52.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:52.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:52.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:52.914][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:52.919][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:52.920][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-07-06 16:05:52.922][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:52.924][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-07-06 16:05:52.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:52.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:52.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:52.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:52.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:52.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:52.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:52.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:52.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:52.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:52.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:52.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:52.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:52.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:52.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:52.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:52.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:52.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:52.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:52.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:52.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:52.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:52.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:52.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:52.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:52.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:52.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:53.011][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:53.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:53.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:53.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:53.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:53.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:53.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:53.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:53.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.041][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.046][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.062][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.067][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.077][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.087][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.092][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.097][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.122][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.127][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.142][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.146][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.151][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:53.152][private$selectFields]
biodb.TRACE[2024-07-06 16:05:53.153][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:53.154][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:53.156][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:53.157][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.158][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.160][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.162][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.163][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.165][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.166][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.168][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.170][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.171][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.172][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.175][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.176][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.177][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.179][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.181][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.182][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.184][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.185][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.187][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.189][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.190][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.191][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.194][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.195][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.196][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.198][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.199][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.201][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.203][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.204][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.205][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.208][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.209][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.210][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.212][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.214][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.215][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.217][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.218][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.220][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.222][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.223][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.224][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.227][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.228][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.229][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.231][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.233][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.234][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.236][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.237][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.239][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.241][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.242][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.243][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.246][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.247][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.248][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.250][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.252][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.253][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.255][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.256][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.258][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.260][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.261][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.262][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.265][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.266][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.267][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.269][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.271][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:53.272][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:53.273][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.274][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.277][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.278][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.279][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.281][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.282][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.284][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.286][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.287][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.288][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.291][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.292][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.293][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.295][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.297][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.298][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.300][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.301][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.303][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.305][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.306][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.307][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.310][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.311][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.312][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.314][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.316][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.317][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.319][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.320][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.322][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.324][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.325][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.326][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.329][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.330][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:53.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.346][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.351][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.356][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.375][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.380][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.385][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.395][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.420][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.424][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.429][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.469][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.474][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.478][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.483][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.493][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.498][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.503][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.508][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.520][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2024-07-06 16:05:53.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:53.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:53.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:53.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:53.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:53.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:53.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:53.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.544][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.549][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.564][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.568][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.573][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.578][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.583][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.588][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.592][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.597][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.621][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.626][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.636][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.641][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.646][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.651][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:53.652][private$selectFields]
biodb.TRACE[2024-07-06 16:05:53.653][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:53.654][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:53.655][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:53.657][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.658][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.660][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.661][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.663][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.665][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.666][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.667][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.670][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.671][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.672][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.675][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.676][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.677][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.679][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.681][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.682][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.684][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.685][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.687][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.688][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.689][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.690][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.692][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.694][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.695][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.697][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.699][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.700][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.702][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.704][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.705][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.707][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.709][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.710][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.711][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.714][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.715][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.716][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.719][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.720][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.721][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.723][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.726][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.728][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.730][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.731][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.733][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.734][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.736][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.738][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.739][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.740][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.743][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.744][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.745][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:53.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.748][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.749][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.750][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.752][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.754][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.755][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.757][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.759][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.760][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.762][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.763][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.765][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.767][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.768][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.770][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.772][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.773][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:53.775][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:53.776][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.777][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.780][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.781][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.782][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.785][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.786][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.787][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.790][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.791][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.792][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.795][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.796][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.797][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.799][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.801][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.802][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.804][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.805][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.807][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.809][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.810][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.811][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.814][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.815][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.816][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.819][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.820][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.821][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.823][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.824][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.826][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.827][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.828][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.829][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:53.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:53.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:53.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.851][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.856][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.862][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:53.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:53.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:53.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.882][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.887][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.892][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:53.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:53.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.907][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:53.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:53.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:53.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.931][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:53.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:53.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.955][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.960][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.965][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:53.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.970][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.975][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.979][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:53.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:53.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.984][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.989][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:53.994][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:53.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:53.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:53.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.006][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [91601, 0, 91601, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24?,25?/m0/s1, ...].
biodb.DEBUG[2024-07-06 16:05:54.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:54.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:54.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:54.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:54.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:54.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:54.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:54.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.030][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.035][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.050][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.055][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.070][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.075][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.080][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.085][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.110][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.115][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.120][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.125][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.130][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.135][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.140][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:54.141][private$selectFields]
biodb.TRACE[2024-07-06 16:05:54.142][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:54.143][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:54.145][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:54.146][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.147][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.150][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.151][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.152][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.154][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.156][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.157][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.159][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.160][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.162][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.164][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.166][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.167][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.169][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.171][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.172][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.174][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.176][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.177][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.179][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.181][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.182][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.184][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.185][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.187][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.189][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.190][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.192][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.194][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.195][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.197][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.199][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.200][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.201][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.204][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.205][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.206][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.209][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.210][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.211][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.214][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.215][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.216][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.219][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.220][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.221][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.224][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.225][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.226][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.228][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.230][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.231][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.233][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.235][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.236][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.238][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.244][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.246][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.248][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.249][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.251][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.253][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.254][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.255][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.258][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.259][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.260][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.263][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.264][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.265][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.267][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.269][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:54.270][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:54.271][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.272][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.275][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.276][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.277][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.280][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.281][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.282][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.284][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.286][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.287][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.289][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.290][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.292][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.294][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.295][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.296][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.299][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.300][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.301][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.304][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.305][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.306][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.308][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.310][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.311][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.313][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.314][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.316][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.318][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.319][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.321][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.323][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.324][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:54.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.340][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.345][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.350][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.370][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.375][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.380][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.395][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.409][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.444][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.449][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.454][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.459][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.469][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.474][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.479][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.484][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.497][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [95147, 0, 95147, C29H40N2O4, InChI=1S/C29H40N2O4/c1-3-18-16(2)14-22-20(18)10-11-21-19-6-4-8-26(33)30-13-5-7-24-28(34)27(29(35)31-24)25(32)12-9-17(19)15-23(21)22/h4,8,10-11,16-24,27H,3,5-7,9,12-15H2,1-2H3,(H,30,33)(H,31,35)/t16-,17-,18-,19+,20+,21-,22+,23+,24+,27?/m1/s1, ...].
biodb.DEBUG[2024-07-06 16:05:54.498][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:54.499][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:54.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:54.505][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:54.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:54.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:54.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:54.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:54.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:54.519][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:54.523][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:54.524][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-07-06 16:05:54.526][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:54.528][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-07-06 16:05:54.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:54.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:54.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:54.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:54.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:54.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:54.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:54.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:54.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:54.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:54.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:54.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:54.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:54.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:54.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:54.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:54.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:54.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:54.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:54.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:54.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:54.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:54.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:54.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:54.615][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:54.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:54.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:54.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:54.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:54.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:54.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:54.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:54.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.640][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.645][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.665][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.670][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.675][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.680][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.685][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.690][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.695][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.700][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.724][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.730][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.735][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.740][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.745][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.755][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:54.756][private$selectFields]
biodb.TRACE[2024-07-06 16:05:54.757][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:54.758][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:54.759][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:54.761][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.762][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.764][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.765][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.767][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.769][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.770][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.774][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.775][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.776][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.779][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.780][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.782][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.784][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.785][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.786][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.789][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.790][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.791][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.793][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.795][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.796][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.798][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.799][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.801][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.803][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.804][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.805][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.808][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.809][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.810][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.812][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.814][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.815][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.818][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.819][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.820][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.823][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.824][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.825][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.828][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.829][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.830][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.832][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.834][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.835][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.837][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.838][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.840][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.842][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.843][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.844][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.847][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.848][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.849][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.852][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.853][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.854][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.857][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.858][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.859][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.862][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.863][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.864][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.866][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.868][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.869][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.871][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.872][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.874][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.876][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.877][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:54.878][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:54.880][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.881][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.883][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.884][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.886][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.888][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.889][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.891][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.893][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.894][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.895][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.898][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.899][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.900][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:54.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.902][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.904][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.905][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:54.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.907][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.908][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.910][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:54.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.912][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.913][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.914][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:54.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.917][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.918][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.919][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:54.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.921][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.923][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.924][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:54.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.926][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.927][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:54.929][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:54.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.931][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.932][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:54.934][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:54.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.936][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.937][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:54.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:54.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:54.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.953][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.958][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.963][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:54.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:54.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:54.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.983][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.988][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.992][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:54.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:54.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:54.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:54.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:54.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.007][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.012][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.022][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.027][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.032][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.036][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.076][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.080][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.085][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.095][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.100][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.105][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.110][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.115][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.128][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [636, 0, 636, C24H26O6, InChI=1S/C24H26O6/c1-12(2)6-7-14-19-17(11-16(26)22(14)28-5)29-18-10-15(25)13-8-9-24(3,4)30-23(13)20(18)21(19)27/h6,10-11,25-26H,7-9H2,1-5H3, ...].
biodb.DEBUG[2024-07-06 16:05:55.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:55.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:55.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:55.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:55.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:55.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:55.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:55.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.152][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.156][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.171][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.176][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.190][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.200][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.205][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.229][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.234][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.239][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.249][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.254][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.260][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:55.261][private$selectFields]
biodb.TRACE[2024-07-06 16:05:55.262][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:55.263][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:55.264][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:55.266][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.269][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.271][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.272][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.274][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.276][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.277][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.279][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.281][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.282][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.284][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.286][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.287][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.289][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.291][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.292][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.294][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.296][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.297][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.300][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.301][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.303][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.305][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.306][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.308][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.310][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.311][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.313][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.316][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.318][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.320][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.321][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.323][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.325][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.326][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.328][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.330][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.332][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.333][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.335][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.336][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.338][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.340][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.341][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.343][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.345][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.347][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.348][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.350][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.352][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.353][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.356][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.357][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.358][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.361][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.362][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.363][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.366][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.367][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.368][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.371][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.372][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.373][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.376][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.377][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.378][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.381][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.382][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.383][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.384][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.386][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.387][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:55.388][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:55.389][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.391][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.393][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.394][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.396][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.398][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.399][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.400][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.403][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.404][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.405][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.408][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.409][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.410][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.413][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.414][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.416][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.418][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.419][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.420][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.423][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.424][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.426][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.428][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.429][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.431][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.433][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.434][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.436][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.438][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.439][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.441][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.443][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.444][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:55.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.467][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.472][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.477][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.497][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.502][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.507][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.512][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.526][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.531][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.570][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.575][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.580][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.585][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.590][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.595][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.600][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.605][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.611][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.623][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [64199, 0, 64199, C24H27ClN2O2, InChI=1S/C24H26N2O2.ClH/c27-24(28)20-9-10-23-22(16-20)21(17-25-23)8-4-5-13-26-14-11-19(12-15-26)18-6-2-1-3-7-18;/h1-3,6-7,9-11,16-17,25H,4-5,8,12-15H2,(H,27,28);1H, ...].
biodb.DEBUG[2024-07-06 16:05:55.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:55.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:55.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:55.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:55.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:55.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:55.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:55.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.648][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.653][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.668][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.673][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.683][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.688][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.697][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.702][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.727][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.732][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.737][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.746][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.751][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.756][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:55.757][private$selectFields]
biodb.TRACE[2024-07-06 16:05:55.758][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:55.760][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:55.761][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:55.762][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.763][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.766][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.767][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.768][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.771][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.772][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.773][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.776][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.777][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.778][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.781][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.782][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.783][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.786][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.787][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.788][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.790][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.792][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.793][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.795][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.796][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.798][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.800][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.801][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.803][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.805][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.806][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.808][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.810][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.811][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.812][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.815][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.816][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.817][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.819][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.821][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.822][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.824][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.826][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.827][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.829][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.830][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.834][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.835][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.836][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.839][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.840][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.841][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.844][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.845][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.846][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.848][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.850][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.851][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:55.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.853][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.855][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.856][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.863][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.865][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.866][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.869][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.870][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.871][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.873][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.875][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.876][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.878][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.879][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.881][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.883][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.884][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:55.885][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:55.887][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.888][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.890][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.891][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.893][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.895][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.896][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.897][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.900][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.901][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.902][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.904][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.906][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:55.907][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:55.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.909][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.910][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.912][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:55.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.914][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.915][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.917][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:55.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.919][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.920][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.921][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:55.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.924][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.925][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.926][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:55.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.928][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.929][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:55.931][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:55.932][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.933][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.934][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:55.936][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:55.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.938][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.939][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:55.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:55.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:55.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.955][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.960][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.965][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:55.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:55.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:55.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.986][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.991][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:55.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:55.996][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:55.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:55.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.021][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.026][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.061][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.066][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.071][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.081][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.086][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.091][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.096][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.101][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.113][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [65648, 0, 65648, C24H26O6, InChI=1S/C24H26O6/c1-13(2)9-10-23-20(27)22(28-5)11-14-19(26)18-15(25)7-6-8-16(18)29-24(14,23)17(12-22)21(3,4)30-23/h6-9,11,17,25H,10,12H2,1-5H3/t17-,22-,23-,24+/m0/s1, ...].
biodb.DEBUG[2024-07-06 16:05:56.115][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:56.116][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:56.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:56.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:56.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:56.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:56.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:56.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:56.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:56.143][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:56.147][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:56.149][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-06 16:05:56.151][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:56.153][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-06 16:05:56.157][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:56.161][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:56.163][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-06 16:05:56.165][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:56.167][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-06 16:05:56.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:56.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:56.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:56.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:56.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:56.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:56.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:56.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:56.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:56.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:56.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:56.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:56.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:56.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:56.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:56.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:56.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:56.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:56.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:56.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:56.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:56.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:56.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:56.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:56.256][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:56.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:56.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:56.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:56.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:56.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:56.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:56.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:56.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:56.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:56.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:56.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:56.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.288][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:56.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:56.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.293][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:56.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:56.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.308][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:56.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:56.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.313][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:56.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:56.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.337][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.341][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.365][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.370][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.375][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.380][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.384][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.389][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.394][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:56.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:56.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.399][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:56.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:56.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.405][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:56.406][private$selectFields]
biodb.TRACE[2024-07-06 16:05:56.407][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:56.408][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:56.409][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:56.411][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:56.412][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:56.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.414][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.415][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:56.417][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:56.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.419][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.420][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.422][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.423][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.424][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.425][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:56.427][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:56.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.429][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.430][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.432][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.434][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.436][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.437][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.439][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.441][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.442][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.444][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.445][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.447][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.449][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.450][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.452][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.454][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.455][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.457][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.459][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.460][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.462][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.464][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.465][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.466][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.469][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.470][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:56.471][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:56.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.474][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.475][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:56.477][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:56.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.479][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.481][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:56.482][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:56.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.484][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.486][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.487][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.490][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.491][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:56.493][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:56.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.495][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.497][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.498][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.500][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.502][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.503][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.506][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.507][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.508][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.511][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.512][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.513][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.516][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.517][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.518][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.521][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.522][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.523][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.526][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.527][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.529][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.531][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.532][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.534][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.536][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.537][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:56.539][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:56.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.541][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.542][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:56.544][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:56.545][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:56.546][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:56.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.549][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.550][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:56.551][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:56.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.554][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.555][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.556][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.558][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.560][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:56.561][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:56.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.563][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.565][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.566][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.568][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.569][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.571][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.573][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.574][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.576][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.578][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.579][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.581][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.583][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.584][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.585][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.588][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.589][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.590][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.593][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.594][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.595][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.598][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.599][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.600][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.603][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.604][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:56.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:56.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:56.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:56.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:56.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:56.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:56.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.620][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:56.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:56.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.625][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:56.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:56.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.630][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:56.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:56.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:56.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:56.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.656][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:56.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:56.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.661][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:56.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:56.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.671][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.702][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.707][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.712][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.747][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.752][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.757][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.777][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.783][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.787][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.801][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4648, 0, 4648, C30H50, InChI=1S/C30H50/c1-20(2)21-12-17-27(5)22(21)13-18-29(7)24(27)10-11-25-28(6)16-9-15-26(3,4)23(28)14-19-30(25,29)8/h21-25H,1,9-19H2,2-8H3/t21-,22+,23+,24-,25-,27+,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2024-07-06 16:05:56.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:56.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:56.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:56.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:56.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:56.813][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:56.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:56.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:56.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:56.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:56.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:56.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.825][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:56.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:56.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.830][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:56.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:56.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.845][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:56.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:56.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.850][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:56.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:56.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.855][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.870][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.875][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.880][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.904][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.909][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.914][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.919][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:56.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:56.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.924][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.929][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:56.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:56.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.934][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:56.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:56.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.939][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:56.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:56.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.944][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:56.945][private$selectFields]
biodb.TRACE[2024-07-06 16:05:56.946][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:56.947][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:56.949][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:56.950][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:56.951][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:56.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.954][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.955][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:56.957][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:56.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.959][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.960][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.962][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:56.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.964][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.965][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:56.967][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:56.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.969][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.970][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:56.971][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:56.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.974][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.975][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.976][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:56.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.979][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.980][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.981][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:56.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.984][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.985][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.986][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:56.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.989][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.990][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.991][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:56.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.994][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:56.995][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.997][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:56.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:56.999][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.000][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.002][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.004][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.005][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.006][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.009][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.010][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:57.011][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:57.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.014][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.015][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.016][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.019][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.020][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.021][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.024][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.025][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.026][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.028][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.030][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.031][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.033][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.035][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.036][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.038][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.040][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.041][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.043][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.044][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.046][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.048][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.049][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.051][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.053][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.054][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.056][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.058][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.059][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.060][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.063][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.064][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.066][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.068][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.069][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.071][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.073][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.074][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:57.076][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:57.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.078][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.079][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:57.081][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:57.082][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.083][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.086][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.087][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.088][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.096][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.097][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.099][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.101][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.102][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.104][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.106][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.107][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.109][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.111][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.112][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.114][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.116][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.117][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.118][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.121][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.122][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.123][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.126][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.127][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.128][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.131][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.132][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.133][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.136][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.137][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.138][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.140][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.142][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.143][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.145][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.147][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:57.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.163][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.168][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.173][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.194][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.199][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.204][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.214][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.229][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.239][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.244][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.249][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.284][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.289][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.294][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.299][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.304][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.309][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.314][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.319][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.324][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.337][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2024-07-06 16:05:57.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:57.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:57.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:57.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:57.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:57.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:57.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:57.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.361][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.366][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.380][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.385][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.395][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.409][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.414][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.438][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.443][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.448][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.458][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.463][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.468][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:57.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:57.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.473][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:57.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:57.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.478][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:57.479][private$selectFields]
biodb.TRACE[2024-07-06 16:05:57.480][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:57.481][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:57.482][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:57.483][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.485][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.487][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.488][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.490][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.492][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.493][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.499][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.502][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.503][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.504][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.507][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.508][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.509][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.512][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.513][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.514][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.517][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.518][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.519][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.522][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.523][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.524][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.526][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.528][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.529][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.531][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.532][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.534][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.536][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.537][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.539][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.541][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.542][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.544][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.546][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.547][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:57.548][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:57.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.551][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.552][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.553][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.556][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.557][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.558][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.561][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.562][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.563][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.565][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.567][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.568][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.570][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.572][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.573][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.575][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.576][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.578][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.580][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.581][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.587][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:57.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.589][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.591][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.592][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.594][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.595][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.597][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.599][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.600][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.601][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.604][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.605][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.606][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.608][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.610][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.611][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.613][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.614][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:57.616][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:57.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.618][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.620][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:57.621][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:57.622][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.624][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.626][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.627][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.629][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.631][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.632][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.633][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.636][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.637][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.638][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.641][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.642][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.644][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.646][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.647][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.650][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.653][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.654][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.655][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.658][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.659][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.660][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.663][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.664][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.665][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.668][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.669][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.670][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.673][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.674][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.675][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.678][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.679][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:57.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.695][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.700][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.705][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:57.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:57.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:57.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.725][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.730][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.735][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:57.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:57.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:57.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:57.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.756][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.766][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:57.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:57.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.801][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.806][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.811][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:57.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.821][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.826][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:57.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:57.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.831][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.836][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.841][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:57.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:57.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.853][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [62447, 0, 62447, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-29(7)24(23)13-14-26-28(6)18-10-17-27(4,5)25(28)16-20-30(26,29)8/h11,23-26H,3,9-10,12-20H2,1-2,4-8H3/t23-,24-,25+,26-,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2024-07-06 16:05:57.855][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:57.856][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:57.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:57.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:57.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:57.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:57.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:57.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:57.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:57.875][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:57.879][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:57.881][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-07-06 16:05:57.882][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:57.884][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-07-06 16:05:57.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:57.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:57.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:57.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:57.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:57.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:57.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:57.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:57.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:57.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:57.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:57.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:57.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:57.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:57.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:57.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:57.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:57.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:57.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:57.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:57.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:57.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:57.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:57.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:57.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:57.975][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:57.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:57.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:57.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:57.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:57.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:57.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:57.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:57.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:57.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:57.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:57.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:57.999][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.004][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.018][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.023][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.047][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.051][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.075][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.080][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.094][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.099][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.104][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.109][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.114][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:58.115][private$selectFields]
biodb.TRACE[2024-07-06 16:05:58.116][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:58.117][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:58.118][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:58.119][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.121][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.123][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.124][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.125][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.128][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.129][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.130][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.132][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.134][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.135][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.137][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.138][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.140][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.141][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.142][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.143][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.144][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.147][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.148][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.149][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.152][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.153][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.154][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.156][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.158][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.159][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.161][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.162][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.164][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.166][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.167][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.168][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.171][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.172][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.173][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.176][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.177][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.178][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.180][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.182][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.183][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.185][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.186][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.188][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.190][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.191][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.192][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.195][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.196][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.197][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.199][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.201][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.202][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.204][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.205][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.207][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.209][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.210][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.212][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.214][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.215][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.216][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.219][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.220][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.221][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.223][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.225][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.226][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.228][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.229][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.231][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.233][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.234][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.236][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.238][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.239][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.240][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.243][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.244][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:58.245][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:58.246][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.248][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.250][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.251][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.253][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.255][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.256][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.258][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.260][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.261][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.262][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.265][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.266][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.267][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.269][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.271][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.272][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.274][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.275][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.277][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.279][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.280][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.281][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.284][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.285][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.286][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.289][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.290][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.291][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.293][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.295][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.296][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.298][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.300][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.330][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.332][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.334][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:58.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.350][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.354][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.359][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.379][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.384][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.389][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.394][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.408][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.413][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.423][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.428][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.433][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.468][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.473][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.478][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.483][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.492][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.497][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.502][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.507][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.520][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2024-07-06 16:05:58.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:58.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:58.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:58.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:58.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:58.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:58.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:58.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.544][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.549][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.566][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.571][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.581][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.586][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.592][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.597][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.602][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.631][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.636][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.642][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.648][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.654][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.660][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.666][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.671][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.676][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:58.677][private$selectFields]
biodb.TRACE[2024-07-06 16:05:58.678][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:58.680][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:58.681][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:58.682][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.683][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.686][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.687][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.689][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.692][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.693][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.695][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.697][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.699][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.700][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.703][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.705][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.706][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.708][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.709][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.711][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.713][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.714][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.716][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.718][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.719][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.721][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.723][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.724][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.726][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.728][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.729][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.731][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.733][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.734][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.735][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.738][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.739][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.740][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.743][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.749][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.751][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.754][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.755][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.756][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.759][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.760][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.761][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.764][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.765][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.766][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.769][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.770][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.771][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.773][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.775][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.776][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.778][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.779][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.781][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.783][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.784][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.786][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:58.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.788][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.789][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.790][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.793][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.794][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.795][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.798][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.799][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.800][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.802][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.804][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.805][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.807][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.809][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.810][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.812][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.813][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.815][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:58.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.817][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.818][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:58.820][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:58.821][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.822][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.824][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.826][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.827][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.829][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.831][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.834][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.835][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.837][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.839][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.840][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.842][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.844][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.845][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.846][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.849][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.850][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.851][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.854][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.855][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.856][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.859][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.860][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.861][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.864][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.865][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:58.866][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:58.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.869][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.870][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:58.871][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:58.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.874][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.875][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:58.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:58.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:58.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.891][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.896][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.902][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:58.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:58.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:58.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.923][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.928][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.932][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:58.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:58.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:58.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:58.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:58.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:58.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:58.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:58.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:58.996][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:58.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.001][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.006][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.011][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.026][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.031][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.035][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.048][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [91601, 0, 91601, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24?,25?/m0/s1, ...].
biodb.DEBUG[2024-07-06 16:05:59.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:59.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:59.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:59.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:59.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:59.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:59.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:59.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.071][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.076][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.091][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.096][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.100][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:59.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:59.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:59.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:59.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.120][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.125][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.154][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.159][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.168][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.173][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.178][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.183][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.188][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.193][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:59.194][private$selectFields]
biodb.TRACE[2024-07-06 16:05:59.195][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:59.196][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:59.197][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:59.198][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.200][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.202][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.204][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.205][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.207][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.209][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.210][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.212][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.213][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.215][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.217][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.218][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:59.220][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:59.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.222][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.223][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.225][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.227][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.228][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.230][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.232][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.233][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.234][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.237][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.238][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.239][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.242][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.243][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.244][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.247][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.248][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.249][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.252][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.253][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.254][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.257][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.258][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.259][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.262][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.263][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.264][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.267][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.268][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.269][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.272][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.276][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.278][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.279][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.281][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.283][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:59.284][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:59.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.287][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.288][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.289][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.292][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.293][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.294][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.297][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.298][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.299][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.302][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.303][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.304][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.307][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.308][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.309][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.312][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.313][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.314][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.317][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.318][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.319][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.322][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.323][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.324][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.326][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.327][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.328][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:59.329][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:05:59.331][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.332][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.335][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.336][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.337][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.340][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.341][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.342][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.345][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.346][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.347][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.348][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.350][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.351][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:59.352][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:59.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.355][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.356][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.357][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.360][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.361][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.363][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.365][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.366][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.368][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.370][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.372][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.373][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.375][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.377][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.378][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.380][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.382][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.383][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.384][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.385][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.387][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:05:59.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.404][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.409][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.414][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.434][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.440][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.445][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.450][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:59.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:59.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:59.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:59.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:59.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:59.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.470][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.511][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.516][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.521][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.526][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.531][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.536][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.542][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.547][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.552][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.569][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [95147, 0, 95147, C29H40N2O4, InChI=1S/C29H40N2O4/c1-3-18-16(2)14-22-20(18)10-11-21-19-6-4-8-26(33)30-13-5-7-24-28(34)27(29(35)31-24)25(32)12-9-17(19)15-23(21)22/h4,8,10-11,16-24,27H,3,5-7,9,12-15H2,1-2H3,(H,30,33)(H,31,35)/t16-,17-,18-,19+,20+,21-,22+,23+,24+,27?/m1/s1, ...].
biodb.DEBUG[2024-07-06 16:05:59.571][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:05:59.572][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-07-06 16:05:59.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:59.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:59.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:59.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:59.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:59.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:59.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 16:05:59.592][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-06 16:05:59.596][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-06 16:05:59.597][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-07-06 16:05:59.599][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 16:05:59.601][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-07-06 16:05:59.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:59.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:59.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:59.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:59.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:59.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:59.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:59.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:59.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:59.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:59.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:59.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:59.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:59.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:59.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:59.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:59.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:59.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:59.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:59.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:59.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:59.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:59.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:59.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 16:05:59.690][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-06 16:05:59.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:05:59.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:05:59.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:05:59.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:05:59.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:05:59.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:05:59.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:05:59.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.716][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.721][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.735][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.740][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:59.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:59.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.750][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:59.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:59.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.760][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.765][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.770][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.795][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.800][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.805][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.810][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.815][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.820][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.825][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.830][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.835][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:59.837][private$selectFields]
biodb.TRACE[2024-07-06 16:05:59.838][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:05:59.839][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:05:59.840][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:59.842][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.843][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.845][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.847][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.848][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.850][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.852][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.853][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.856][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.857][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.858][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.861][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.862][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:59.863][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:59.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.865][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.867][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.868][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.870][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.872][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.873][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.875][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.877][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.878][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.880][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.882][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.883][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.885][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.887][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.888][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.890][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.891][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.893][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.895][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.896][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.898][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.900][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.902][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.903][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.906][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.907][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.908][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.911][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.912][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.914][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.916][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.919][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.922][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.923][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.924][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.927][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.928][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:05:59.930][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:05:59.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.932][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.933][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.935][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:05:59.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.937][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.938][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.940][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:05:59.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.942][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.943][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.944][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:05:59.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.947][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.948][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.950][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:05:59.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.952][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.953][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.955][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:05:59.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.957][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.958][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:05:59.960][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:05:59.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.962][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.964][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:05:59.965][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:05:59.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.968][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.969][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.970][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:05:59.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.973][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.974][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:59.975][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:05:59.976][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:05:59.983][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:05:59.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.986][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.987][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:05:59.988][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:05:59.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.991][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.992][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.993][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:05:59.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:05:59.996][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:05:59.997][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:05:59.998][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:05:59.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.001][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.002][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.003][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.006][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.007][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.008][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.011][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.012][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.013][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.016][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.017][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.018][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.020][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.022][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.023][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.025][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.027][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.028][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.030][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.031][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.033][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.035][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.036][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.037][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.040][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.041][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:06:00.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.057][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.062][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.067][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.087][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.092][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.097][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.102][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.112][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.122][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.127][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.132][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.137][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.142][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.177][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.182][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.187][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.193][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.198][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.203][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.208][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.213][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.218][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.231][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [636, 0, 636, C24H26O6, InChI=1S/C24H26O6/c1-12(2)6-7-14-19-17(11-16(26)22(14)28-5)29-18-10-15(25)13-8-9-24(3,4)30-23(13)20(18)21(19)27/h6,10-11,25-26H,7-9H2,1-5H3, ...].
biodb.DEBUG[2024-07-06 16:06:00.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:06:00.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:06:00.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:06:00.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:06:00.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:06:00.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:06:00.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:06:00.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.256][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.261][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.275][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.280][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.305][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.310][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.335][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.340][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.345][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.350][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.355][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.359][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.364][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.369][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.374][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:06:00.375][private$selectFields]
biodb.TRACE[2024-07-06 16:06:00.376][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:06:00.378][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:06:00.379][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:06:00.380][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.381][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.383][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.389][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.390][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.392][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.394][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.395][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.396][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.399][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.400][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.401][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.404][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.405][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.406][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.409][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.410][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.411][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.413][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.415][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.416][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.418][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.419][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.421][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.423][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.424][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.426][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.428][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.429][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.430][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.433][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.434][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.435][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.438][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.439][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.440][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.442][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.444][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.445][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.447][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.448][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.450][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.452][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.453][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.455][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.457][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.458][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.459][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.462][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.463][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.465][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.467][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.468][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.470][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.472][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.473][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.475][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.477][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.478][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.480][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.482][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.483][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.485][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.487][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.488][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.490][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.492][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.493][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.494][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.497][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.498][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.499][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.502][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.503][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.504][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.507][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.508][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.509][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.512][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.513][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:06:00.514][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:06:00.515][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.517][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.519][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.520][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.521][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.524][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.525][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.529][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.530][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.531][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.534][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.535][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.536][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.539][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.540][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.541][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.544][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.545][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.546][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.548][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.550][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.551][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.553][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.555][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.556][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.558][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.560][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.561][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.563][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.564][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.566][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.568][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.569][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:06:00.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.585][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.590][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.595][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.615][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.620][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.625][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.645][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.690][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.695][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.700][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.705][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.710][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.715][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.720][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.725][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.730][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.744][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [64199, 0, 64199, C24H27ClN2O2, InChI=1S/C24H26N2O2.ClH/c27-24(28)20-9-10-23-22(16-20)21(17-25-23)8-4-5-13-26-14-11-19(12-15-26)18-6-2-1-3-7-18;/h1-3,6-7,9-11,16-17,25H,4-5,8,12-15H2,(H,27,28);1H, ...].
biodb.DEBUG[2024-07-06 16:06:00.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 16:06:00.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:06:00.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:06:00.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:06:00.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:06:00.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:06:00.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 16:06:00.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.768][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.773][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.788][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.798][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.823][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.828][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.853][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.858][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.862][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.867][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.872][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.877][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.882][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.887][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.892][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:06:00.893][private$selectFields]
biodb.TRACE[2024-07-06 16:06:00.894][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-06 16:06:00.895][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-06 16:06:00.897][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-07-06 16:06:00.898][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.899][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.901][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.903][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.904][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.905][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.906][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.908][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.909][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.911][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.912][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.914][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.916][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.917][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.919][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.921][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.922][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.924][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.926][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.927][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.929][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.931][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.932][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.934][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.936][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.937][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.938][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:00.940][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.941][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.942][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.943][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:00.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.946][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.947][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:00.948][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:00.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.951][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.952][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:00.953][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:00.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.955][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.957][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.958][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:06:00.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.960][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.961][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:00.963][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:00.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.965][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.966][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:00.968][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:00.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.970][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.971][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.972][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:00.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.975][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.976][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:00.978][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:00.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.980][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.981][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:00.982][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:00.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.985][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.986][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.987][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:00.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.990][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.991][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.992][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 16:06:00.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:00.995][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:00.996][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.997][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:00.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.000][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.001][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:01.002][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:01.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.005][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.006][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:01.007][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:01.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.010][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.011][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:01.012][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:01.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.015][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.016][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:01.017][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:01.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.020][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.021][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-07-06 16:06:01.022][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-07-06 16:06:01.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.025][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.026][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:06:01.027][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-07-06 16:06:01.029][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:01.030][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:01.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.032][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.033][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:01.035][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:01.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.037][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.038][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:01.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:01.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.042][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.043][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:01.045][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:01.046][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.047][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.048][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:01.050][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:01.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.052][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.053][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:01.055][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:01.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.057][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.058][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:01.060][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:01.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.062][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.063][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:01.065][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:01.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.067][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.068][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:01.070][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:01.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.072][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.073][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:01.075][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:01.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.077][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.078][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:01.080][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:01.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.082][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.083][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-07-06 16:06:01.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:01.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:01.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:01.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:01.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 16:06:01.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 16:06:01.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.100][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:01.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:01.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.105][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:01.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:01.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.110][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-06 16:06:01.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-06 16:06:01.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:01.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:01.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:01.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:01.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 16:06:01.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 16:06:01.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.131][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:01.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:01.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.136][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:01.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:01.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.141][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 16:06:01.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 16:06:01.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:01.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:01.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.151][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:01.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:01.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 16:06:01.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 16:06:01.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.161][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:01.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:01.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.166][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:01.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:01.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.171][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 16:06:01.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 16:06:01.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:01.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:01.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:01.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:01.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:01.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-06 16:06:01.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:01.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:01.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:01.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:01.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:01.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 16:06:01.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.213][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:01.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:01.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.218][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:01.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:01.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.223][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-06 16:06:01.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-06 16:06:01.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:01.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:01.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.233][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:01.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:01.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.238][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 16:06:01.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 16:06:01.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.243][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:01.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:01.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.248][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:01.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:01.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.253][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 16:06:01.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 16:06:01.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.265][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [65648, 0, 65648, C24H26O6, InChI=1S/C24H26O6/c1-13(2)9-10-23-20(27)22(28-5)11-14-19(26)18-15(25)7-6-8-16(18)29-24(14,23)17(12-22)21(3,4)30-23/h6-9,11,17,25H,10,12H2,1-5H3/t17-,22-,23-,24+/m0/s1, ...].
biodb.DEBUG[2024-07-06 16:06:01.267][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-06 16:06:01.268][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-06 16:06:01.276][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:06:01.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:06:01.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.281][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:06:01.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:06:01.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 16:06:01.286][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-06 16:06:01.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-06 16:06:01.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 16:06:01.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-06 16:06:01.295][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-06 16:06:01.296][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-06 16:06:01.298][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-06 16:06:01.299][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-06 16:06:01.300][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 16:06:01.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 16:06:01.302][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 16:06:01.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 16:06:01.304][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 16:06:01.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 1396 ]
> 
> proc.time()
   user  system elapsed 
 90.748   4.015 228.711

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.19-bioc-longtests/meat/biodbChebi.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.4
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.10.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
  Running ‘testthat.R’
 OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

* installing *source* package ‘biodbChebi’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)