Multiple platform build/check report for BioC 3.20 - CHECK results for biodbChebi on merida1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 22.04.3 LTS)	x86_64	4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup"	4679
palomino4	Windows Server 2022 Datacenter	x64	4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup"	4414
merida1	macOS 12.7.4 Monterey	x86_64	4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup"	4441
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup"	4394
Click on any hostname to see more info about the system (e.g. compilers) () as reported by 'uname -p', except on Windows and Mac OS X*

CHECK results for biodbChebi on merida1

To the developers/maintainers of the biodbChebi package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results

Summary

Package: biodbChebi

Version: 1.11.0

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.11.0.tar.gz

StartedAt: 2024-06-10 00:27:36 -0400 (Mon, 10 Jun 2024)

EndedAt: 2024-06-10 00:31:21 -0400 (Mon, 10 Jun 2024)

EllapsedTime: 224.8 seconds

RetCode: 0

Status: OK

CheckDir: biodbChebi.Rcheck

Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.11.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/biodbChebi.Rcheck’
* using R version 4.4.0 Patched (2024-04-24 r86482)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.4
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.11.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
          user system elapsed
ChebiConn 4.76   1.23  13.521
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2024-06-10 00:29:21.349][biodb::testContext]
biodb.INFO [2024-06-10 00:29:21.356][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 00:29:21.359][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-06-10 00:29:21.362][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 00:29:21.364][biodb::testContext]
biodb.INFO [2024-06-10 00:29:21.381][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-06-10 00:29:21.385][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-10 00:29:21.403][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 00:29:21.407][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-10 00:29:21.410][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-10 00:29:21.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.422][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-10 00:29:21.483][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-10 00:29:21.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.494][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-10 00:29:21.498][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-10 00:29:21.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.514][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-10 00:29:21.517][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-10 00:29:21.522][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-10 00:29:21.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.571][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-10 00:29:21.574][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-10 00:29:21.577][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-10 00:29:21.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.585][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-10 00:29:21.588][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-10 00:29:21.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.597][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-10 00:29:21.599][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-10 00:29:21.602][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-10 00:29:21.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.612][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-10 00:29:21.614][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-10 00:29:21.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.624][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-10 00:29:21.627][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-10 00:29:21.629][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-10 00:29:21.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.638][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-10 00:29:21.640][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-10 00:29:21.643][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-10 00:29:21.646][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-10 00:29:21.648][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-10 00:29:21.651][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-10 00:29:21.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.659][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-10 00:29:21.662][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-10 00:29:21.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.670][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-10 00:29:21.673][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-10 00:29:21.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.685][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-10 00:29:21.688][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-10 00:29:21.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.697][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-10 00:29:21.700][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-10 00:29:21.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.709][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-10 00:29:21.713][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-10 00:29:21.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.723][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-10 00:29:21.726][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-10 00:29:21.750][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-10 00:29:21.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.759][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-10 00:29:21.762][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-10 00:29:21.767][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-10 00:29:21.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:21.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:21.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:21.784][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-10 00:29:21.876][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:21.921][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-10 00:29:21.925][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:21.927][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:29:21.930][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:21.932][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:29:21.934][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:21.938][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:29:21.940][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 00:29:21.942][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:29:21.945][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:21.948][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-10 00:29:21.950][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:29:21.952][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:21.954][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:21.956][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 00:29:21.956][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 00:29:21.956][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 00:29:21.956][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 00:29:21.956][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 00:29:21.958][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:29:21.961][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:29:21.963][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:29:21.965][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:29:21.967][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:29:21.969][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:29:21.971][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:29:21.973][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:21.975][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:29:21.977][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:29:21.979][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:21.982][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:21.984][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-10 00:29:21.988][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:21.992][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 00:29:21.995][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:21.998][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:29:22.001][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:22.003][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:29:22.006][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:22.008][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:29:22.010][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 00:29:22.012][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:29:22.015][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:22.017][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-10 00:29:22.020][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:29:22.022][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:22.025][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:22.027][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 00:29:22.027][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 00:29:22.027][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 00:29:22.027][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 00:29:22.027][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 00:29:22.030][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:29:22.033][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:29:22.035][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:29:22.037][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:29:22.040][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:29:22.042][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:29:22.044][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:29:22.047][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:22.049][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:29:22.052][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:29:22.054][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:22.057][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:22.060][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-10 00:29:22.064][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:22.067][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-10 00:29:22.070][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:22.072][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:29:22.074][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:22.077][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:29:22.080][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:22.086][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:29:22.088][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 00:29:22.095][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:29:22.106][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:22.108][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-10 00:29:22.110][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:29:22.113][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:22.115][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:22.117][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:22.119][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:29:22.122][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:29:22.124][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:29:22.126][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:29:22.128][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:29:22.130][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:29:22.132][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:29:22.134][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:22.137][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:29:22.139][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:29:22.141][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:22.144][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:22.146][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-10 00:29:22.150][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:22.153][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 00:29:22.155][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:22.158][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:29:22.160][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:22.162][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:29:22.164][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:22.166][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:29:22.169][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 00:29:22.171][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:29:22.174][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:22.176][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-10 00:29:22.179][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:29:22.181][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:22.183][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:22.185][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:22.188][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:29:22.191][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:29:22.192][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:29:22.195][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:29:22.197][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:29:22.199][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:29:22.203][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:29:22.205][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:22.208][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:29:22.211][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:29:22.213][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:22.215][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:29:22.224][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 00:29:22.226][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.447][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-10 00:29:22.459][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-10 00:29:22.464][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-10 00:29:22.467][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-10 00:29:22.471][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-10 00:29:22.477][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-10 00:29:22.481][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-10 00:29:22.485][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-10 00:29:22.489][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-10 00:29:22.492][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-10 00:29:22.496][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 00:29:22.500][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-10 00:29:22.504][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-10 00:29:22.509][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-10 00:29:22.512][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-10 00:29:22.516][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-10 00:29:22.520][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-10 00:29:22.524][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-10 00:29:22.528][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-10 00:29:22.532][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-10 00:29:22.535][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-10 00:29:22.541][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-10 00:29:22.544][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-10 00:29:22.567][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-10 00:29:22.570][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-10 00:29:22.574][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-10 00:29:22.577][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-10 00:29:22.580][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-10 00:29:22.584][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-10 00:29:22.587][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-10 00:29:22.590][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-10 00:29:22.593][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-10 00:29:22.597][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-10 00:29:22.600][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-10 00:29:22.603][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-10 00:29:22.610][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-10 00:29:22.616][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-10 00:29:22.620][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-10 00:29:22.624][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-10 00:29:22.627][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-10 00:29:22.631][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-10 00:29:22.634][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-10 00:29:22.638][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-10 00:29:22.642][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-10 00:29:22.654][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-10 00:29:22.657][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-10 00:29:22.660][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-10 00:29:22.664][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-10 00:29:22.667][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-10 00:29:22.670][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-10 00:29:22.674][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-10 00:29:22.677][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-10 00:29:22.680][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-10 00:29:22.683][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-10 00:29:22.687][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-10 00:29:22.690][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-10 00:29:22.693][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-10 00:29:22.697][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-10 00:29:22.701][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-10 00:29:22.704][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-10 00:29:22.708][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-10 00:29:22.711][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-10 00:29:22.715][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-10 00:29:22.718][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-10 00:29:22.721][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-10 00:29:22.724][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-10 00:29:22.726][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-10 00:29:22.730][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-10 00:29:22.733][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-10 00:29:22.737][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-10 00:29:22.740][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-10 00:29:22.745][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-10 00:29:22.749][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-10 00:29:22.752][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-10 00:29:22.758][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-10 00:29:22.761][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-10 00:29:22.764][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-10 00:29:22.769][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-10 00:29:22.773][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-10 00:29:22.777][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-10 00:29:22.780][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-10 00:29:22.785][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-10 00:29:22.790][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-10 00:29:22.808][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-10 00:29:22.813][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-06-10 00:29:22.821][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 00:29:22.823][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.828][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:22.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:22.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:22.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:22.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:22.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:22.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:22.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:22.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:22.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:22.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:22.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:22.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:22.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:22.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:22.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:22.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:22.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:22.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:22.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:22.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:22.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:22.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:22.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:23.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:23.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:23.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:23.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:23.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:23.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:23.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:23.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:23.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:23.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:23.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:23.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:23.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:23.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:23.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:23.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:23.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:23.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:23.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:23.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:23.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:23.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:23.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:23.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:23.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:23.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:23.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:23.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:23.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:23.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:23.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:23.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:23.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:23.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:23.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:23.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:23.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:23.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:23.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:23.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:23.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:23.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:23.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:23.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:23.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:23.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:23.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:23.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:23.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:23.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:23.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:29:23.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:23.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:23.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:23.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:23.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:23.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:23.124][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-10 00:29:23.159][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-10 00:29:23.164][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:23.166][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-10 00:29:23.169][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:23.171][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:29:23.173][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:23.176][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:29:23.178][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:23.181][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-10 00:29:23.184][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-10 00:29:23.186][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:29:23.189][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:23.191][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-10 00:29:23.195][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:29:23.198][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-10 00:29:23.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-10 00:29:23.198][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-10 00:29:23.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-10 00:29:23.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-10 00:29:23.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-10 00:29:23.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-10 00:29:23.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-10 00:29:23.198][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-10 00:29:23.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-10 00:29:23.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-10 00:29:23.202][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-10 00:29:23.206][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 00:29:23.206][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 00:29:23.206][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 00:29:23.208][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-10 00:29:23.211][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:29:23.213][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:29:23.215][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:29:23.217][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:29:23.219][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:29:23.222][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:29:23.225][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-10 00:29:23.225][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-10 00:29:23.227][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:29:23.230][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:29:23.234][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-10 00:29:23.237][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-10 00:29:23.237][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-10 00:29:23.253][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-10 00:29:23.256][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 00:29:23.260][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-10 00:29:23.264][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-10 00:29:23.268][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-10 00:29:23.271][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-10 00:29:23.320][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-10 00:29:23.322][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-10 00:29:23.332][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-10 00:29:23.340][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-10 00:29:23.349][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 00:29:23.351][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 00:29:23.355][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-10 00:29:23.357][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-10 00:29:23.377][biodb::testThat]
biodb.INFO [2024-06-10 00:29:23.379][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-06-10 00:29:23.382][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:29:23.384][biodb::testThat]
biodb.TRACE[2024-06-10 00:29:23.561][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-06-10 00:29:23.565][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:23.572][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:23.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:23.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:23.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:23.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:23.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:23.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:23.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:23.644][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:23.646][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:23.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.654][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:23.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:23.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.701][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:23.703][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:23.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.708][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.780][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:23.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:23.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.793][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:23.796][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:23.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.800][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.803][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:23.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:23.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.828][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:23.831][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:23.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.835][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:23.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:23.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.846][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:23.849][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:23.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.854][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.858][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:23.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:23.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.870][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:23.873][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:23.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.877][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.879][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:23.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:23.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.889][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:23.891][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:23.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.898][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.901][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:23.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:23.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.910][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:23.913][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:23.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.917][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:23.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:23.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.929][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:23.932][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:23.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.938][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.942][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:23.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:23.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.953][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:23.956][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:23.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.960][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.963][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:23.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:23.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.975][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:23.977][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:23.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.983][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.986][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:23.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:23.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:23.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:23.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:24.197][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-06-10 00:29:24.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:24.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:24.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:24.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:24.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:24.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:24.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.349][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:24.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:24.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:24.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:24.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:24.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:24.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.386][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-10 00:29:24.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-10 00:29:24.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.396][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-10 00:29:24.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-10 00:29:24.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.406][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-10 00:29:24.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-10 00:29:24.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.414][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-10 00:29:24.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-10 00:29:24.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:24.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:24.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:24.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:24.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:24.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:25.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:25.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:25.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:25.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:25.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:25.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.089][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:25.091][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:25.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.096][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:25.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:25.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:25.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:25.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:25.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:25.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:25.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:25.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.174][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:25.177][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:25.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.182][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:25.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:25.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:25.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:25.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.221][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:25.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:25.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.232][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:25.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:25.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.247][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:25.251][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:25.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.257][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.260][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:25.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:25.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.291][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:25.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:25.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.302][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:25.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:25.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.312][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:25.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:25.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.322][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:25.325][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:25.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.330][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.332][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:25.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:25.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:25.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:25.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:25.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:25.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:25.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:25.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.400][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:25.404][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:25.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.410][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:25.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:25.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:25.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:25.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:25.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:25.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:25.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:25.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.482][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:25.485][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:25.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.489][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:25.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:25.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.522][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:25.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:25.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.532][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:25.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:25.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.542][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:25.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:25.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.560][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:25.563][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:25.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.569][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.572][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:25.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:25.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.603][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-10 00:29:25.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:25.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.613][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-10 00:29:25.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:25.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.627][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-10 00:29:25.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:25.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.639][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-10 00:29:25.642][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:25.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.648][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.651][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-10 00:29:25.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:25.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.681][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:25.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:25.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.691][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:25.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:25.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.702][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:25.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:25.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.712][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:25.715][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:25.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.723][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.725][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:25.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:25.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.753][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:25.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:25.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.763][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:25.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:25.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.774][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:25.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:25.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.784][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:25.787][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:25.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.792][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.795][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:25.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:25.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:25.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:25.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:25.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:25.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:25.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:25.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.871][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:25.873][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:25.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.878][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.880][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:25.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:25.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:25.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:25.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:25.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:25.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.935][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:25.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:25.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.945][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:25.948][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:25.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.953][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:25.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:25.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:25.987][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:25.989][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:25.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:25.993][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.010][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:26.013][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:26.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.020][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.032][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:26.035][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:26.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.038][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.049][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:26.054][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:26.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.059][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.071][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:26.074][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:26.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.080][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.092][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:26.095][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:26.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.100][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.111][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:26.114][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:26.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.119][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.131][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:26.134][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:26.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.139][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.151][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-10 00:29:26.154][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:26.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.160][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.172][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:26.175][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:26.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.182][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.201][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:26.204][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:26.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.208][ef$get] fields variable is a list.
biodb.INFO [2024-06-10 00:29:26.227][biodb::testThat]
biodb.INFO [2024-06-10 00:29:26.230][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-06-10 00:29:26.232][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:29:26.234][biodb::testThat]
biodb.DEBUG[2024-06-10 00:29:26.274][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-06-10 00:29:26.287][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:26.295][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-06-10 00:29:26.300][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:26.303][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-06-10 00:29:26.305][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:26.367][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:26.369][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:26.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:26.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:26.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:26.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:26.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:26.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:26.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:26.400][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:26.402][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:26.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.407][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:26.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:26.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.465][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:26.468][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:26.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.474][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.478][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:26.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:26.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.490][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:26.493][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:26.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.499][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.505][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:26.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:26.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.520][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:26.522][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:26.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.528][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:26.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:26.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.613][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:26.615][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:26.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.626][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:26.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:26.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.642][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:26.645][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:26.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.651][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.655][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:26.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:26.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.678][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:26.689][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:26.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.696][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.699][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:26.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:26.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.734][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:26.738][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:26.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.743][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:26.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:26.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.765][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:26.767][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:26.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.771][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.782][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:26.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:26.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.801][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:26.803][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:26.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.813][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.816][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:26.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:26.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.842][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:26.850][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:26.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.855][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.858][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:26.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:26.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:26.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:26.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:26.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:26.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:26.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:26.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:26.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:26.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:26.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:26.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:26.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:26.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:26.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:26.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:27.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:27.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:27.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:27.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:27.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:27.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:27.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:27.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:27.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:27.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:27.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:27.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:27.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:27.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:27.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:27.082][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-06-10 00:29:27.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-06-10 00:29:27.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-06-10 00:29:27.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:27.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:27.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-06-10 00:29:27.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-06-10 00:29:27.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:27.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:27.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-06-10 00:29:27.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-06-10 00:29:27.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:27.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-10 00:29:27.240][biodb::testThat]
biodb.INFO [2024-06-10 00:29:27.243][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-06-10 00:29:27.245][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:29:27.247][biodb::testThat]
biodb.TRACE[2024-06-10 00:29:27.255][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:27.257][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:27.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:27.271][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:27.275][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-06-10 00:29:27.407][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:27.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:27.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:27.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:27.419][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:27.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:27.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:27.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:27.433][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:27.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:27.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:27.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:27.458][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-06-10 00:29:27.467][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-10 00:29:27.608][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:29:27.691][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-06-10 00:29:27.694][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:27.705][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-06-10 00:29:27.841][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:29:28.123][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:29:28.127][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-10 00:29:28.133][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:28.496][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-10 00:29:28.509][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-06-10 00:29:28.542][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:28.544][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:28.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:28.549][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:28.551][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:28.553][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:28.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:28.557][ef$get] fields variable is a list.
biodb.INFO [2024-06-10 00:29:28.567][biodb::testThat]
biodb.INFO [2024-06-10 00:29:28.569][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-06-10 00:29:28.572][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:29:28.574][biodb::testThat]
biodb.TRACE[2024-06-10 00:29:28.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:28.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:28.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:28.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:28.678][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:28.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:28.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:28.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:28.688][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:28.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:28.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:28.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:28.944][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:29:28.985][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:29:28.989][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-10 00:29:28.992][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:28.995][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-06-10 00:29:29.061][biodb::testThat]
biodb.INFO [2024-06-10 00:29:29.075][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-06-10 00:29:29.100][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:29:29.102][biodb::testThat]
biodb.TRACE[2024-06-10 00:29:29.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:29.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:29.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:29.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:29.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:29.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:29.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.265][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:29.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:29.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:29.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:29.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:29.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:29.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.329][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-10 00:29:29.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-10 00:29:29.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.348][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-10 00:29:29.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-10 00:29:29.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.376][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-10 00:29:29.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-10 00:29:29.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.405][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-10 00:29:29.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-10 00:29:29.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.523][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:29.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:29.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.543][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:29.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:29.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.564][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:29.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:29.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:29.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:29.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:29.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:29.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:29.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:29.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.638][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-10 00:29:29.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-10 00:29:29.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.656][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-10 00:29:29.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-10 00:29:29.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.690][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-10 00:29:29.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-10 00:29:29.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:29.709][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-10 00:29:29.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-10 00:29:29.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:29.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-10 00:29:29.843][biodb::testThat]
biodb.INFO [2024-06-10 00:29:29.846][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-06-10 00:29:29.848][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:29:29.850][biodb::testThat]
biodb.INFO [2024-06-10 00:29:29.868][biodb::testThat]
biodb.INFO [2024-06-10 00:29:29.871][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-06-10 00:29:29.873][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:29:29.875][biodb::testThat]
biodb.INFO [2024-06-10 00:29:29.908][biodb::testThat]
biodb.INFO [2024-06-10 00:29:29.910][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-06-10 00:29:29.912][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:29:29.914][biodb::testThat]
biodb.DEBUG[2024-06-10 00:29:29.925][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-06-10 00:29:30.973][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-06-10 00:29:31.845][biodb::testThat]
biodb.INFO [2024-06-10 00:29:31.847][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-06-10 00:29:31.849][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:29:31.852][biodb::testThat]
biodb.DEBUG[2024-06-10 00:29:32.268][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2024-06-10 00:29:32.688][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:32.690][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:32.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:32.695][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:32.698][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:32.726][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:32.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:32.731][ef$get] fields variable is a list.
biodb.INFO [2024-06-10 00:29:32.735][biodb::testThat]
biodb.INFO [2024-06-10 00:29:32.737][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-06-10 00:29:32.740][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:29:32.742][biodb::testThat]
biodb.TRACE[2024-06-10 00:29:32.768][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:32.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:32.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:32.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:32.777][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:32.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:32.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:32.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:32.786][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:32.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:32.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:32.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:33.141][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:29:33.159][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:29:33.163][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-10 00:29:33.166][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:33.175][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-10 00:29:33.563][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:29:33.581][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:29:33.585][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-10 00:29:33.588][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:33.604][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-06-10 00:29:33.694][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 00:29:33.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 00:29:33.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:33.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:33.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:33.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:33.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:33.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:33.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:33.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:33.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:33.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:33.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:33.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:33.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:33.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:33.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:33.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:33.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:33.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:33.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:33.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:33.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:33.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:33.849][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:29:33.883][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:29:33.886][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-10 00:29:33.889][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:34.276][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-10 00:29:34.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:34.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:34.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:34.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:34.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:34.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:34.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:34.353][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-06-10 00:29:34.489][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:34.501][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-06-10 00:29:34.831][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:34.853][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2024-06-10 00:29:34.855][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:34.858][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:34.861][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:34.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:34.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:34.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:34.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:34.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:34.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:34.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:34.894][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:34.897][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:34.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:34.901][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:34.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:34.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:34.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:34.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:34.915][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:34.919][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:34.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:34.924][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:34.927][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:34.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:34.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:34.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:34.951][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:34.955][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:34.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:34.959][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:34.963][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:34.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:34.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:34.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:34.973][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:34.975][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:34.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:34.980][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:34.984][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:34.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:34.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:34.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:34.994][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:34.997][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:35.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.002][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:35.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.013][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:35.016][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:35.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.020][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.024][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:35.027][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.031][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.043][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:35.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.065][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:35.067][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:35.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.077][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:35.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:35.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.098][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:35.101][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:35.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.115][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:35.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:35.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.142][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:35.146][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:35.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.151][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.163][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:35.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:35.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.182][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:35.185][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:35.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.189][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.200][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:35.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:35.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:35.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:35.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:35.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:35.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:35.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:35.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:35.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:35.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:35.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:35.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:35.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:35.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:35.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:35.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:35.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:35.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:35.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:35.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:35.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:35.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:35.403][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-06-10 00:29:35.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:35.536][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:29:35.562][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:29:35.576][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-10 00:29:35.591][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:35.811][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-10 00:29:35.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:35.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:35.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:35.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:35.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:35.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:35.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:35.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:35.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:35.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:35.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:35.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:35.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:35.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:35.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:35.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:35.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:35.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:35.935][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-06-10 00:29:35.938][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:35.942][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-06-10 00:29:36.142][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:36.388][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2024-06-10 00:29:36.391][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:36.393][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:36.396][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:36.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:36.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:36.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:36.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:36.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:36.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:36.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:36.426][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:36.430][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:36.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.436][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:36.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:36.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.455][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:36.465][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:36.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.470][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.472][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:36.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:36.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.482][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:36.485][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:36.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.489][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.492][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:36.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:36.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.501][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:36.503][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:36.505][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.508][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:36.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:36.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.519][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:36.522][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:36.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.526][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:36.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:36.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.539][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:36.550][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:36.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.555][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.558][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:36.566][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:36.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.571][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.573][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:36.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:36.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.592][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:36.595][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:36.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.609][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:36.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:36.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.635][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:36.647][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:36.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.665][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:36.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:36.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.678][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:36.691][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:36.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.701][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.704][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:36.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:36.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.731][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:36.733][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:36.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.751][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.754][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:36.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:36.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:36.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:36.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:36.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:36.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:36.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:36.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:36.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:36.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:36.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:36.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:36.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:36.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:36.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:36.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:36.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:36.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:36.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:36.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:36.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:36.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:37.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:37.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:37.018][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-06-10 00:29:37.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:37.179][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:29:37.187][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:29:37.203][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-10 00:29:37.206][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:37.219][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-10 00:29:37.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:37.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:37.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:37.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:37.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:37.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:37.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:37.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:37.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:37.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:37.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:37.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:37.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:37.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:37.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:37.400][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-06-10 00:29:37.413][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:37.417][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-06-10 00:29:37.421][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:37.606][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2024-06-10 00:29:37.609][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:37.611][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:37.614][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:37.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:37.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:37.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:37.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:37.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:37.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:37.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:37.644][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:37.647][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:37.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.651][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:37.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:37.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.664][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:37.666][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:37.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.671][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.674][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:37.676][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:37.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.689][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.692][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:37.701][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:37.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.706][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.709][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:37.720][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:37.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.725][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.727][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:37.736][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:37.738][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.741][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.743][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:37.749][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:37.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.765][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.768][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:37.771][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:37.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.786][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.788][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:37.791][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:37.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.796][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:37.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:37.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.830][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:37.833][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:37.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.848][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.850][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:37.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:37.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.871][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:37.874][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:37.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.891][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:37.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:37.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:37.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:37.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:37.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:37.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:37.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:37.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:37.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:37.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:37.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:37.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:38.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:38.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:38.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:38.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:38.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:38.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:38.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:38.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:38.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:38.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:38.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:38.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:38.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:38.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:38.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:38.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:38.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:38.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:38.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:38.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:38.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:38.117][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-06-10 00:29:38.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:38.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:38.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:38.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:38.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:38.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:38.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:38.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:38.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:38.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:38.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:38.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:38.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:38.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:38.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:38.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:38.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:38.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:38.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:38.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:38.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:38.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:38.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:38.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:38.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:38.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:38.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:38.310][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-06-10 00:29:38.312][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:38.316][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-06-10 00:29:38.716][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:39.128][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2024-06-10 00:29:39.132][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:39.136][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:39.139][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:39.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:39.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:39.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:39.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:39.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:39.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:39.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:39.186][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:39.188][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:39.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.193][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:39.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:39.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.206][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:39.208][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:39.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.212][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.215][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:39.217][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:39.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.221][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.224][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:39.227][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:39.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.231][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.234][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:39.236][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:39.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.241][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.243][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:39.246][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:39.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.250][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.254][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:39.257][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:39.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.261][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.264][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:39.267][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:39.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.272][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.280][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:39.283][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:39.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.287][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.291][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:39.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:39.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.301][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:39.303][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:39.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.308][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.310][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:39.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:39.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.330][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:39.333][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:39.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.337][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:39.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:39.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:39.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:39.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:39.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:39.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:39.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:39.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:39.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:39.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:39.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:39.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:39.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:39.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:39.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:39.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:39.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:39.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:39.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:39.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:39.560][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-06-10 00:29:39.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:39.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:39.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:39.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:39.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:39.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:39.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:39.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:39.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:39.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:39.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:39.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:39.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:39.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:39.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:39.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:39.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:39.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:39.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:39.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:39.731][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-06-10 00:29:39.733][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:39.746][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-06-10 00:29:40.058][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:40.423][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2024-06-10 00:29:40.425][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:40.428][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:40.431][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:40.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:40.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:40.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:40.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:40.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:40.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:40.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:40.462][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:40.464][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:40.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.468][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:40.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:40.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.481][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:40.483][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:40.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.489][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.491][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:40.496][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:40.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.503][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.507][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:40.509][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:40.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.514][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.516][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:40.519][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:40.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.523][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.525][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:40.528][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:40.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.532][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.535][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:40.537][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:40.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.542][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.545][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:40.547][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:40.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.551][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.554][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:40.556][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:40.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.560][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:40.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:40.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.593][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:40.596][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:40.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.625][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.628][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:40.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:40.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.648][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:40.651][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:40.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.665][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:40.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:40.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:40.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:40.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:40.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:40.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:40.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:40.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:40.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:40.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:40.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:40.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:40.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:40.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:40.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:40.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:40.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:40.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:40.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:40.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:40.867][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-06-10 00:29:40.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:40.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:40.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:40.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:40.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:40.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:40.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:40.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:40.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:40.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:40.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:41.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:41.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:41.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:41.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:41.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:41.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:41.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:41.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:41.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:41.106][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-06-10 00:29:41.110][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:41.124][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-06-10 00:29:41.128][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:41.412][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2024-06-10 00:29:41.415][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:41.430][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:41.433][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:41.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:41.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:41.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:41.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:41.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:41.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:41.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:41.466][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:41.468][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:41.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.473][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:41.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:41.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.494][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:41.497][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:41.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.501][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.504][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:41.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:41.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.515][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:41.518][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:41.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.522][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.525][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:41.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:41.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.543][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:41.546][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:41.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.550][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:41.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:41.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.563][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:41.565][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:41.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.570][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.579][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:41.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:41.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:41.602][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:41.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.607][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.618][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:41.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:41.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.628][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:41.642][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:41.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.646][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.648][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:41.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:41.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.674][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:41.676][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:41.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.692][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:41.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:41.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.718][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:41.721][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:41.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.735][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:41.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:41.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.758][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:41.761][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:41.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.766][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.770][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:41.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:41.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.781][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:41.784][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:41.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.831][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.834][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:41.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:41.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:41.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:41.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:41.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:41.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:41.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:41.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:41.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:41.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:41.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:41.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:41.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:41.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:41.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:41.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:42.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:42.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:42.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:42.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:42.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:42.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:42.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:42.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:42.209][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-06-10 00:29:42.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:42.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:42.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:42.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:42.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:42.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:42.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:42.283][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:42.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:42.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:42.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:42.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:42.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:42.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:42.348][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-06-10 00:29:42.362][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:42.379][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-06-10 00:29:42.382][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:42.743][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2024-06-10 00:29:42.746][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:42.749][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:42.754][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:42.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:42.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:42.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:42.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:42.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:42.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:42.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:42.790][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:42.792][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:42.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.796][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:42.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:42.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.808][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:42.810][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:42.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.815][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.818][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:42.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:42.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.826][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:42.829][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:42.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.844][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.848][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:42.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:42.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.880][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:42.883][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:42.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.887][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:42.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:42.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.898][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:42.913][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:42.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.918][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:42.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:42.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.952][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:42.955][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:42.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:42.969][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:42.972][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:42.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:42.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.005][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:43.007][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:43.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.012][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.029][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:43.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:43.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.051][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:43.054][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:43.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.064][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:43.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:43.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.077][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:43.089][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:43.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.093][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.096][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:43.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:43.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.114][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:43.116][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:43.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.121][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.138][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:43.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:43.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.155][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:43.158][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:43.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.195][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:43.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:43.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:43.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:43.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:43.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:43.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:43.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:43.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:43.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:43.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:43.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:43.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:43.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:43.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:43.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:43.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:43.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:43.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:43.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:43.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:43.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:43.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:43.506][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-06-10 00:29:43.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:43.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:43.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:43.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:43.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:43.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:43.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:43.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:43.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:43.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:43.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:43.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:43.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:43.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:43.644][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-06-10 00:29:43.646][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:43.661][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-06-10 00:29:43.755][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:43.794][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2024-06-10 00:29:43.799][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:43.802][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:43.804][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:43.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:43.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:43.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:43.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:43.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:43.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:43.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:43.843][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:43.846][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:43.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.854][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:43.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:43.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.871][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:43.874][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:43.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.888][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.902][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:43.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:43.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.944][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:43.947][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:43.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.951][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.955][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:43.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:43.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.965][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:43.967][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:43.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.972][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:43.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:43.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:43.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:43.994][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:43.997][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:43.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.002][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.016][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:44.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:44.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.028][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:44.038][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:44.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.072][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.075][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:44.078][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:44.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.083][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.086][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:44.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:44.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.103][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:44.117][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:44.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.121][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:44.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:44.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.149][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:44.151][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:44.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.155][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:44.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:44.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.212][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:44.215][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:44.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.225][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.228][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:44.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:44.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.238][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:44.240][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:44.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.245][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.247][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:44.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:44.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:44.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:44.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:44.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:44.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:44.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:44.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:44.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:44.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:44.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:44.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:44.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:44.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:44.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:44.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:44.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:44.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:44.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:44.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:44.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:44.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:44.494][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-06-10 00:29:44.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:44.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:44.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:44.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:44.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:44.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:44.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:44.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:44.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:44.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:44.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:44.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:44.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:44.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:44.654][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-06-10 00:29:44.656][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:44.661][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-06-10 00:29:44.743][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:44.751][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2024-06-10 00:29:44.754][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:44.757][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:44.760][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:44.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:44.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:44.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:44.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:44.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:44.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:44.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:44.870][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:44.883][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:44.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.887][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:44.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:44.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.900][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:44.902][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:44.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.948][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.951][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:44.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:44.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.977][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:44.980][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:44.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.984][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.987][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:44.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:44.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:44.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:44.996][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:44.998][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:45.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.003][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:45.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:45.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.024][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:45.027][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:45.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.031][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:45.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:45.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.046][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:45.050][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:45.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.055][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.067][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:45.096][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:45.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.101][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.104][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:45.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:45.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.113][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:45.115][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:45.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.119][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:45.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:45.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.134][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:45.146][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:45.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.150][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:45.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:45.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.173][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:45.176][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:45.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.211][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.214][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:45.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:45.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.224][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:45.226][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:45.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.231][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.233][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:45.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:45.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:45.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:45.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:45.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:45.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:45.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:45.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:45.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:45.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:45.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:45.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:45.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:45.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:45.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:45.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:45.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:45.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:45.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:45.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:45.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:45.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:45.459][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-06-10 00:29:45.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:45.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:45.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:45.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:45.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:45.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:45.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:45.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:45.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:45.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:45.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:45.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:45.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:45.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:45.598][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-06-10 00:29:45.605][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:45.627][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-06-10 00:29:45.633][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:45.863][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2024-06-10 00:29:45.866][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:45.876][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:45.879][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:45.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:45.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:45.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:45.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:45.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:45.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:45.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:45.915][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:45.918][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:45.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.927][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:45.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:45.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.960][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:45.962][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:45.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.967][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.971][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:45.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:45.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.981][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:45.984][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:45.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.989][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:45.992][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:45.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:45.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:45.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.001][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:46.004][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:46.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.008][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:46.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:46.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.020][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:46.023][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:46.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.032][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:46.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:46.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.052][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:46.069][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:46.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.073][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.076][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:46.083][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:46.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.088][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.090][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:46.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:46.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.119][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:46.122][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:46.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.128][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:46.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:46.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.154][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:46.164][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:46.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.168][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.171][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:46.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:46.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.197][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:46.199][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:46.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.217][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.223][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:46.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:46.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.244][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:46.275][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:46.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.280][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.283][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:46.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:46.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:46.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:46.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:46.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:46.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:46.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:46.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:46.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:46.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:46.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:46.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:46.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:46.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:46.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:46.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:46.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:46.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:46.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:46.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:46.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:46.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:46.537][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-06-10 00:29:46.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:46.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:46.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:46.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:46.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:46.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:46.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:46.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:46.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:46.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:46.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:46.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:46.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:46.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:46.713][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-06-10 00:29:46.721][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:46.736][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-06-10 00:29:46.759][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:46.763][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2024-06-10 00:29:46.765][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:46.768][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:46.771][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:46.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:46.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:46.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:46.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:46.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:46.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:46.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:46.827][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:46.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:46.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.845][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:46.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:46.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.870][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:46.873][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:46.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.877][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.897][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:46.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:46.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.929][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:46.932][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:46.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.937][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.940][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:46.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:46.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.963][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:46.967][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:46.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.971][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:46.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:46.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:46.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:46.994][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:47.008][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:47.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.014][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:47.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:47.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.062][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:47.074][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:47.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.080][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.082][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:47.095][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:47.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.115][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.118][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:47.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:47.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.141][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:47.144][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:47.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.159][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:47.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:47.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.180][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:47.183][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:47.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.187][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.200][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:47.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:47.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.216][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:47.231][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:47.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.236][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.239][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:47.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:47.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.279][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:47.281][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:47.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.296][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.318][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:47.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:47.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:47.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:47.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:47.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:47.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:47.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:47.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:47.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:47.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:47.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:47.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:47.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:47.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:47.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:47.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:47.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:47.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:47.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:47.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:47.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:47.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:47.570][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-06-10 00:29:47.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:47.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:47.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:47.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:47.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:47.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:47.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:47.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:47.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:47.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:47.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:47.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:47.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:47.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:47.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:47.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:47.708][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-06-10 00:29:47.728][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:47.744][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-06-10 00:29:47.775][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:48.107][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2024-06-10 00:29:48.109][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:48.112][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:48.115][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:48.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:48.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:48.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:48.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:48.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:48.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:48.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:48.147][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:48.149][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:48.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.154][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:48.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:48.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.167][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:48.170][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:48.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.174][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.177][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:48.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:48.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.207][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:48.209][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:48.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.214][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.217][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:48.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:48.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.226][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:48.229][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:48.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.233][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:48.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:48.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.246][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:48.249][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:48.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.271][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.274][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:48.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:48.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.296][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:48.331][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:48.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.336][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.339][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:48.355][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:48.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.372][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.384][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:48.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:48.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.395][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:48.398][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:48.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.403][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:48.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:48.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.433][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:48.436][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:48.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.450][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.454][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:48.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:48.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.476][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:48.487][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:48.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.493][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.496][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:48.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:48.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.520][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:48.523][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:48.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.547][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.550][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:48.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:48.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:48.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:48.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:48.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:48.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:48.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:48.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:48.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:48.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:48.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:48.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:48.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:48.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:48.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:48.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:48.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:48.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:48.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:48.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:48.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:48.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:48.841][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-06-10 00:29:48.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:48.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:48.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:48.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:48.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:48.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:48.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:48.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:48.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:48.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:48.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:48.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:48.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:48.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:48.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:48.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:48.970][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-06-10 00:29:48.983][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:48.988][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-06-10 00:29:49.038][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:49.046][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2024-06-10 00:29:49.049][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:49.052][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:49.055][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:49.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:49.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:49.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:49.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:49.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:49.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:49.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:49.113][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:49.152][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:49.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.157][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:49.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:49.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.172][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:49.180][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:49.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.185][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.200][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:49.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:49.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.223][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:49.226][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:49.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.259][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.263][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:49.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:49.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.284][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:49.287][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:49.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.300][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.304][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:49.307][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:49.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.348][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.352][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:49.356][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:49.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.373][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.378][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:49.390][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:49.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.404][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.408][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:49.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:49.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.436][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:49.441][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:49.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.447][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:49.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:49.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.480][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:49.483][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:49.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.496][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.500][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:49.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:49.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.521][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:49.527][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:49.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.532][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.545][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:49.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:49.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.566][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:49.569][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:49.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.574][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:49.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:49.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:49.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:49.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:49.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:49.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:49.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:49.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:49.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:49.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:49.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:49.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:49.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:49.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:49.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:49.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:49.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:49.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:49.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:49.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:49.810][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-06-10 00:29:49.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:49.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:49.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:49.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:49.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:49.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:49.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:49.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:49.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:49.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:49.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:49.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:49.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:49.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:49.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:49.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:49.924][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-06-10 00:29:49.935][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:49.939][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-06-10 00:29:49.944][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:50.342][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2024-06-10 00:29:50.345][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:50.348][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:50.350][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:50.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:50.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:50.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:50.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:50.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:50.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:50.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:50.382][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:50.423][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:50.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.427][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:50.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:50.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.440][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:50.443][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:50.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.449][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.452][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:50.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:50.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.464][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:50.467][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:50.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.472][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.475][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:50.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:50.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.484][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:50.487][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:50.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.491][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.494][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:50.497][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:50.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.501][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.505][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:50.508][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:50.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.514][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.516][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:50.519][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:50.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.534][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.537][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:50.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:50.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.547][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:50.549][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:50.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.558][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:50.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:50.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.586][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:50.589][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:50.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.600][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.604][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:50.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:50.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.619][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:50.622][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:50.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.636][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.641][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:50.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:50.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.662][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:50.665][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:50.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.669][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:50.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:50.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:50.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:50.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:50.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:50.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:50.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:50.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:50.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:50.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:50.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:50.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:50.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:50.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:50.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:50.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:50.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:50.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:50.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:50.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:50.877][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-06-10 00:29:50.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:50.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:50.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:50.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:50.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:50.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:50.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:50.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:50.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:50.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:50.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:50.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:50.969][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:50.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:50.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:50.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:50.978][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-06-10 00:29:50.981][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:50.984][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-06-10 00:29:51.525][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:52.102][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2024-06-10 00:29:52.105][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:52.108][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:52.111][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:52.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:52.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:52.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:52.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:52.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:52.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:52.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:52.146][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:52.152][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:52.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.157][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:52.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:52.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.168][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:52.170][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:52.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.175][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.177][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:52.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:52.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.187][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:52.189][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:52.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.194][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.196][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:52.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:52.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.205][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:52.208][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:52.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.212][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:52.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:52.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.225][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:52.227][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:52.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.232][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.235][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:52.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:52.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.245][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:52.247][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:52.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.251][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.257][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:52.259][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:52.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.273][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.276][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:52.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:52.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.285][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:52.287][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:52.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.300][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:52.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:52.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.315][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:52.317][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:52.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.322][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:52.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:52.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.334][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:52.337][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:52.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.341][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.344][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:52.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:52.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.370][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:52.373][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:52.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.378][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.391][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:52.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:52.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:52.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:52.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:52.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:52.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:52.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:52.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:52.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:52.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:52.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:52.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:52.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:52.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:52.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:52.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:52.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:52.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:52.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:52.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:52.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:52.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:52.595][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-06-10 00:29:52.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:52.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:52.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:52.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:52.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:52.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:52.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:52.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:52.667][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:52.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:52.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:52.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:52.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:52.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:52.689][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-06-10 00:29:52.691][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:52.729][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-06-10 00:29:52.748][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:52.752][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2024-06-10 00:29:52.754][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:52.785][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:52.798][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:52.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:52.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:52.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:52.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:52.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:52.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:52.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:52.863][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:52.866][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:52.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.902][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:52.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:52.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.925][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:52.928][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:52.940][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.942][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.945][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:52.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:52.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:52.969][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:52.983][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:52.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:52.988][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.000][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:53.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:53.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.024][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:53.041][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:53.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.046][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.049][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:53.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:53.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.097][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:53.100][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:53.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.105][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:53.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:53.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.159][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:53.162][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:53.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.181][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.196][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:53.199][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:53.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.216][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.219][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:53.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:53.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.243][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:53.246][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:53.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.260][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:53.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:53.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.284][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:53.287][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:53.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.292][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:53.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:53.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.307][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:53.310][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:53.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.356][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.359][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:53.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:53.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.380][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:53.383][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:53.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.397][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.400][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:53.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:53.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:53.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:53.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:53.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:53.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:53.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:53.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:53.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:53.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:53.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:53.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:53.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:53.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:53.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:53.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:53.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:53.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:53.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:53.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:53.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:53.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:53.753][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-06-10 00:29:53.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:53.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:53.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:53.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:53.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:53.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:53.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:53.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:53.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:53.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:53.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:53.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:53.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:53.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:53.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:53.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:53.914][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-06-10 00:29:53.918][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:53.935][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-06-10 00:29:53.939][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:53.948][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2024-06-10 00:29:53.953][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:53.960][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:53.964][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:53.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:53.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:53.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:54.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:54.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:54.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:54.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:54.079][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:54.082][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:54.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.098][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:54.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:54.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.135][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:54.150][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:54.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.156][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.169][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:54.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:54.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.193][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:54.196][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:54.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.215][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.218][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:54.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:54.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.243][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:54.260][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:54.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.266][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:54.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:54.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.302][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:54.310][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:54.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.373][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.378][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:54.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:54.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.401][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:54.404][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:54.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.411][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.414][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:54.418][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:54.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.423][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.453][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:54.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:54.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.482][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:54.485][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:54.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.503][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:54.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:54.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.530][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:54.547][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:54.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.554][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:54.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:54.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.589][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:54.603][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:54.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.608][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.611][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:54.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:54.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.636][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:54.640][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:54.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.657][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.661][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:54.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:54.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:54.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:54.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:54.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:54.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:54.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:54.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:54.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:54.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:54.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:54.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:54.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:54.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:54.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:54.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:54.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:54.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:54.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:54.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:54.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:54.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:54.925][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-06-10 00:29:54.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:54.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:54.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:54.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:54.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:54.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:54.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:54.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:54.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:55.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:55.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:55.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:55.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:55.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:55.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:55.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:55.098][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-06-10 00:29:55.100][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:55.104][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-06-10 00:29:55.120][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:55.148][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2024-06-10 00:29:55.150][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:55.153][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:55.156][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:55.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:55.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:55.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:55.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:55.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:55.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:55.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:55.264][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:55.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:55.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.271][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:55.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:55.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.306][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:55.309][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:55.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.313][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.329][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:55.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:55.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.350][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:55.352][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:55.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.357][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.372][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:55.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:55.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.400][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:55.402][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:55.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.407][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:55.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:55.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.441][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:55.444][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:55.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.461][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.464][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:55.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:55.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.504][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:55.507][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:55.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.566][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.569][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:55.572][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:55.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.642][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.645][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:55.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:55.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.654][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:55.657][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:55.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.661][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:55.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:55.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.678][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:55.681][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:55.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.685][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.688][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:55.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:55.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.698][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:55.702][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:55.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.706][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.712][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:55.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:55.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.721][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:55.724][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:55.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.741][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.744][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:55.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:55.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:55.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:55.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:55.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:55.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:55.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:55.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:55.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:55.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:55.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:55.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:55.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:55.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:55.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:55.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:55.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:55.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:55.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:55.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:55.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:55.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:55.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:55.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:56.003][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-06-10 00:29:56.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:56.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:56.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:56.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:56.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:56.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:56.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:56.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:56.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:56.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:56.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:56.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:56.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:56.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:56.145][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-06-10 00:29:56.147][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:56.151][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-06-10 00:29:56.166][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:56.170][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2024-06-10 00:29:56.172][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:56.179][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:56.182][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:56.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:56.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:56.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:56.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:56.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:56.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:56.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:56.242][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:56.255][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:56.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.260][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:56.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:56.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.294][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:56.298][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:56.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.302][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.312][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:56.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:56.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.335][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:56.337][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:56.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.351][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.354][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:56.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:56.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.394][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:56.398][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:56.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.402][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:56.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:56.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.435][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:56.437][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:56.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.442][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.456][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:56.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:56.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.476][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:56.479][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:56.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.484][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.492][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:56.495][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:56.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.499][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.521][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:56.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:56.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.541][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:56.544][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:56.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.549][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:56.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:56.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.590][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:56.593][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:56.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.602][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.605][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:56.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:56.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.620][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:56.622][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:56.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.646][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.649][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:56.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:56.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.670][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:56.672][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:56.688][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.691][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.693][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:56.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:56.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:56.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:56.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:56.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:56.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:56.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:56.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:56.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:56.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:56.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:56.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:56.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:56.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:56.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:56.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:56.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:56.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:56.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:56.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:56.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:56.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:56.950][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-06-10 00:29:56.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:56.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:56.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:56.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:56.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:56.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:57.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:57.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:57.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:57.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:57.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:57.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:57.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:57.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:57.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:57.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:57.093][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-06-10 00:29:57.096][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:57.099][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-06-10 00:29:57.114][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:57.117][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2024-06-10 00:29:57.129][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:57.132][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:57.134][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:57.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:57.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:57.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:57.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:57.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:57.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:57.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:57.209][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:57.212][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:57.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.245][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:57.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:57.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.269][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:57.272][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:57.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.285][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.288][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:57.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:57.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.304][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:57.306][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:57.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.325][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.329][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:57.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:57.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.350][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:57.353][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:57.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.368][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.370][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:57.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:57.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.395][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:57.398][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:57.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.412][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:57.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:57.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.435][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:57.449][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:57.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.453][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.467][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:57.470][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:57.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.475][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.485][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:57.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:57.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.503][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:57.506][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:57.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.528][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:57.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:57.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.566][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:57.568][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:57.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.573][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.586][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:57.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:57.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.596][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:57.599][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:57.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.634][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.648][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:57.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:57.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.670][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:57.673][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:57.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.696][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.710][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:57.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:57.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:57.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:57.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:57.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:57.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:57.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:57.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:57.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:57.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:57.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:57.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:57.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:57.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:57.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:57.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:57.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:57.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:57.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:57.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:57.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:57.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:57.935][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-06-10 00:29:57.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:57.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:57.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:57.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:57.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:57.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:57.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:57.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:57.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:58.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:58.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:58.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:58.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:58.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:58.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:58.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:29:58.061][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-06-10 00:29:58.064][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:29:58.078][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-06-10 00:29:58.082][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:58.085][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2024-06-10 00:29:58.096][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:29:58.099][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:29:58.102][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:29:58.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:58.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:58.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:58.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:58.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:58.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:58.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:58.179][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:58.181][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:58.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:58.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:58.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.224][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:58.237][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:58.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.242][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.265][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:29:58.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:29:58.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.289][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:58.303][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:58.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.307][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.322][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:29:58.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:29:58.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.342][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:58.344][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:58.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.348][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.362][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:29:58.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:29:58.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.390][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:58.392][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:58.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.403][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:29:58.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:29:58.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.424][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:58.427][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:29:58.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.436][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.439][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:58.442][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:58.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.463][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.476][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:29:58.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:58.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.485][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:58.503][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:58.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.510][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:58.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:29:58.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.529][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:58.533][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:58.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.537][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.540][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:29:58.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:29:58.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.561][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:58.586][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:58.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.591][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.594][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:29:58.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:29:58.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.628][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:58.640][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:58.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.645][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.647][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:29:58.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:29:58.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:58.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:58.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:58.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:58.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:58.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:58.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:29:58.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:29:58.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:58.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:58.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:58.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:58.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:58.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:58.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:58.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:58.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:58.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:58.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:29:58.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:29:58.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:58.930][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-06-10 00:29:58.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:58.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:58.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:58.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:58.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:58.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:58.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:58.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:58.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:59.088][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:29:59.096][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:29:59.110][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-10 00:29:59.114][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:29:59.118][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-10 00:29:59.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:59.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:59.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:59.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:59.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:59.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:59.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:59.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:59.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:59.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:59.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:59.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:59.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:59.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:59.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:59.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:59.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:59.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:59.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:59.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:59.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:59.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:59.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:59.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:59.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:59.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:59.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:59.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:59.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:59.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:59.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:59.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:59.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:59.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:59.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:59.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:59.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:59.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:59.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:59.902][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:29:59.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:29:59.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:29:59.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:29:59.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:29:59.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:29:59.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:29:59.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:29:59.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:29:59.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:29:59.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:29:59.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:00.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:00.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:00.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:00.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:00.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:00.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:00.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:00.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:00.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:00.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:00.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:00.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:00.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:00.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:00.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:00.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:00.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:00.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:00.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:00.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:00.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:00.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:00.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:00.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:00.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:00.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:00.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:00.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:00.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:00.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:00.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:00.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:00.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:00.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:00.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:00.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:00.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:00.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:00.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:00.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:00.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:00.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:00.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:00.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:00.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:00.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:00.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:00.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:00.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:00.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:00.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:00.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:00.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:00.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:00.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:00.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:00.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:00.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:00.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:00.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:00.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:00.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:00.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:00.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:00.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:00.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:00.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:01.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:01.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:01.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:01.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:01.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:01.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:01.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:01.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:01.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:01.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:01.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:01.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:01.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:01.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:01.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:01.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:01.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:01.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:01.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:01.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:01.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:01.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:01.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:01.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.409][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:01.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:01.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:01.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:01.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:01.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:01.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:01.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:01.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:01.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:01.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:01.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:01.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:01.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:01.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:01.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:01.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:01.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:01.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:01.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:01.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:01.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:01.764][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:01.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:01.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:01.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:01.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:01.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:01.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:01.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:01.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:01.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:01.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:01.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:01.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:02.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:02.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:02.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:02.203][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:02.223][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:02.231][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2024-06-10 00:30:02.234][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:02.238][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2024-06-10 00:30:02.254][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:02.281][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:02.296][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2024-06-10 00:30:02.299][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:02.344][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2024-06-10 00:30:02.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:02.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:02.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:02.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:02.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:02.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:02.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:02.419][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-06-10 00:30:02.422][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:30:02.425][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-06-10 00:30:02.428][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:02.432][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2024-06-10 00:30:02.435][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:30:02.438][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:30:02.441][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:30:02.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:02.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:02.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:02.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:02.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:02.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:02.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:02.508][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:02.523][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:02.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.527][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:02.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:02.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.551][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:30:02.575][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:30:02.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.580][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.583][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:30:02.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:30:02.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.602][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:30:02.615][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:30:02.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.621][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.635][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:30:02.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:30:02.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.657][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:30:02.661][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:30:02.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.666][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:30:02.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:30:02.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.693][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:30:02.696][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:30:02.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.700][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:30:02.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:30:02.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.762][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:02.766][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:02.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.770][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.787][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:02.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:02.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.807][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:30:02.810][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:02.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.814][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.825][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:30:02.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:02.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.851][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:02.854][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:02.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.858][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:02.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:02.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.899][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:02.902][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:02.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.906][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.920][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:02.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:02.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.940][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:30:02.943][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:30:02.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.947][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.960][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:30:02.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:30:02.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:02.981][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:30:02.983][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:30:02.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:02.988][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.000][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:30:03.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:30:03.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:03.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:03.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:03.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:03.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:03.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:03.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:03.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:03.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:03.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:03.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:03.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:03.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:03.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:03.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:03.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:03.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:03.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:03.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:03.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:03.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:03.248][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-06-10 00:30:03.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:03.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:03.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:03.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:03.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:03.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:03.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:03.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:03.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:03.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:03.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:03.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:03.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:03.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:03.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:03.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:03.557][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-06-10 00:30:03.559][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:30:03.563][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-06-10 00:30:03.581][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:03.586][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2024-06-10 00:30:03.588][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:30:03.591][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:30:03.594][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:30:03.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:03.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:03.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:03.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:03.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:03.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:03.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:03.676][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:03.680][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:03.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.697][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:03.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:03.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.738][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:30:03.742][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:30:03.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.755][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.759][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:30:03.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:30:03.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.778][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:30:03.782][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:30:03.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.817][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.820][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:30:03.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:30:03.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.833][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:30:03.836][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:30:03.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.840][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.843][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:30:03.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:30:03.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.876][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:30:03.890][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:30:03.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.897][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.911][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:30:03.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:30:03.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.930][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:03.933][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:03.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.937][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.950][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:30:03.952][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:03.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.956][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.969][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:30:03.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:03.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:03.987][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.990][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:03.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:03.994][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.023][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:04.026][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:04.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.054][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.063][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:04.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:04.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.088][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:30:04.091][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:30:04.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.095][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.121][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:30:04.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:30:04.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.146][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:30:04.149][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:30:04.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.153][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.167][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:30:04.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:30:04.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:04.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:04.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:04.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:04.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:04.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:04.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:04.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:04.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:04.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:04.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:04.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:04.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:04.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:04.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:04.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:04.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:04.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:04.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:04.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:04.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:04.401][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-06-10 00:30:04.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:04.577][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:04.598][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:04.602][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-10 00:30:04.605][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:04.608][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-10 00:30:04.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:04.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:04.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:04.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:04.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:04.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:04.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:04.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:04.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:04.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:04.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:04.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:04.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:04.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:04.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:04.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:04.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:04.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:04.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:04.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:04.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:04.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:04.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:04.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:04.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:04.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:04.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:05.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:05.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:05.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:05.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:05.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:05.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:05.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:05.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:05.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:05.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:05.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:05.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:05.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:05.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:05.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:05.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:05.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:05.420][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:05.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:05.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:05.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:05.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:05.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:05.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:05.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:05.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:05.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:05.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:05.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:05.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:05.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:05.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:05.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:05.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:05.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:05.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:05.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:05.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:05.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:05.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:05.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:05.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:05.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:05.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:05.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:05.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:05.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:05.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:05.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:05.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:05.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:05.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:05.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:05.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:05.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:05.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:05.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:05.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:05.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:06.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:06.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:06.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:06.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:06.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:06.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:06.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:06.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:06.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:06.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:06.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:06.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:06.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:06.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:06.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:06.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:06.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:06.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:06.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:06.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:06.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:06.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:06.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:06.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:06.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:06.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:06.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:06.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:06.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:06.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:06.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:06.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:06.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:06.551][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:06.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:06.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:06.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:06.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:06.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:06.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:06.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:06.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:06.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:06.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:06.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:06.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:06.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:06.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:06.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:06.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:06.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:06.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:06.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:06.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:06.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:06.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:06.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:06.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:06.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:06.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:06.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:06.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:06.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:06.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:06.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:06.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:06.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:07.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:07.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:07.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:07.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:07.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:07.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:07.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:07.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:07.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:07.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:07.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:07.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:07.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:07.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:07.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:07.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:07.398][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:07.420][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:07.424][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-10 00:30:07.427][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:07.429][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-10 00:30:07.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:07.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:07.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:07.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:07.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:07.495][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:07.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:07.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:07.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:07.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:07.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:07.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:07.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:07.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:07.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:07.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:07.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:07.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:07.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:07.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:07.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:07.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:07.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:07.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:07.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:07.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:07.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:07.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:07.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:07.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:08.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:08.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:08.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:08.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:08.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:08.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:08.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:08.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:08.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:08.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:08.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:08.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:08.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:08.300][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:08.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:08.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:08.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:08.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:08.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:08.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:08.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:08.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:08.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:08.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:08.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:08.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:08.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:08.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:08.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:08.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:08.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:08.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:08.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:08.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:08.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:08.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:08.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:08.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:08.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:08.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:08.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:08.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:08.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:08.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:08.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:08.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:08.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:08.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:08.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:08.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:08.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:08.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:08.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:08.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:08.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:08.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:08.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:08.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:08.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:08.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:08.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:08.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:08.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:08.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:09.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:09.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:09.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:09.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:09.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:09.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:09.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:09.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:09.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:09.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:09.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:09.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:09.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:09.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:09.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:09.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:09.283][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:09.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:09.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:09.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:09.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:09.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:09.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:09.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:09.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:09.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:09.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:09.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:09.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:09.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:09.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:09.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:09.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:09.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:09.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:09.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:09.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:09.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:09.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:09.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:09.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:09.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:09.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:09.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:09.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:09.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:09.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:09.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:09.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:09.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:09.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:09.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:09.972][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:09.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:09.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:09.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:09.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:09.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:09.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:10.042][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:10.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:10.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:10.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:10.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:10.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:10.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:10.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:10.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:10.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:10.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:10.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:10.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:10.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:10.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:10.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:10.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.399][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-10 00:30:10.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-10 00:30:10.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-10 00:30:10.451][biodb::testThat]
biodb.INFO [2024-06-10 00:30:10.465][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-06-10 00:30:10.467][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:10.469][biodb::testThat]
biodb.TRACE[2024-06-10 00:30:10.487][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 00:30:10.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 00:30:10.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:10.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:10.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:10.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:10.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:10.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:10.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:10.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:10.697][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:10.718][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:10.721][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-10 00:30:10.736][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:10.753][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-10 00:30:10.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:10.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:10.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:10.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:10.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:10.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:10.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:10.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:10.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:10.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:10.882][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:10.901][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:10.904][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-10 00:30:10.907][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:10.910][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-10 00:30:10.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:10.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:10.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:10.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:10.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:10.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:10.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:10.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:10.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:11.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:11.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:11.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:11.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:11.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:11.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:11.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:11.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:11.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:11.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:11.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:11.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:11.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:11.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:11.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:11.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:11.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:11.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:11.592][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-10 00:30:11.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:11.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:11.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:11.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:11.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:11.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:11.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:11.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.686][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:11.691][private$selectFields]
biodb.TRACE[2024-06-10 00:30:11.693][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:11.695][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:11.697][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:11.699][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.701][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.716][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.719][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.721][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.736][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.738][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:11.741][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:11.753][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.756][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.760][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.762][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:11.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.887][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-10 00:30:11.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:11.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:11.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:11.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:11.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:11.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:11.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:11.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:11.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:11.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:11.998][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:12.001][private$selectFields]
biodb.TRACE[2024-06-10 00:30:12.003][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:12.005][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:12.019][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:12.021][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.024][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.028][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.042][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.045][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.051][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.065][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:12.068][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:12.070][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.072][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.088][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.090][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:12.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.153][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-10 00:30:12.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:12.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:12.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:12.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:12.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:12.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:12.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:12.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.262][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:12.265][private$selectFields]
biodb.TRACE[2024-06-10 00:30:12.280][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:12.283][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:12.285][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:12.299][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.302][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.308][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.324][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.326][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.332][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.344][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:12.347][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:12.349][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.352][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.368][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.371][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:12.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:12.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.455][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-10 00:30:12.458][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-10 00:30:12.470][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-10 00:30:12.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:12.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:12.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:12.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:12.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:12.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:12.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:12.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:12.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:12.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:12.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:13.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:13.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:13.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:13.065][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:13.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:13.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:13.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:13.092][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:13.126][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:13.130][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-10 00:30:13.134][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:13.151][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-10 00:30:13.172][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:13.208][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:13.212][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-10 00:30:13.216][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:13.277][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-10 00:30:13.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:13.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:13.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:13.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:13.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:13.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:13.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:13.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:13.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:13.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:13.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:13.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:13.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:13.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:13.420][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:13.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:13.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:13.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:13.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:13.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:13.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:13.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:13.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:13.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:13.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:13.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:13.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:13.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:13.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:13.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:13.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:13.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:13.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:13.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:13.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:13.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:13.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:13.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:13.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:13.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:13.858][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-10 00:30:14.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:14.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:14.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:14.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:14.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:14.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:14.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:14.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.136][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:14.139][private$selectFields]
biodb.TRACE[2024-06-10 00:30:14.151][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:14.154][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:14.173][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:14.176][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.179][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.200][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.204][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.207][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.214][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.229][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:14.233][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:14.237][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.266][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.280][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:14.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.444][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-10 00:30:14.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:14.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:14.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:14.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:14.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:14.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:14.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:14.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.722][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:14.724][private$selectFields]
biodb.TRACE[2024-06-10 00:30:14.729][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:14.731][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:14.733][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:14.735][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.738][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.742][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.745][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.783][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.788][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.791][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:14.858][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:14.872][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.875][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.880][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.882][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:14.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:14.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:14.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:14.962][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-10 00:30:14.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:14.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:14.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:15.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:15.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:15.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:15.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:15.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.059][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:15.062][private$selectFields]
biodb.TRACE[2024-06-10 00:30:15.064][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:15.067][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:15.085][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:15.087][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.090][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.105][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.107][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.110][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.125][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.127][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:15.130][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:15.132][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.145][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.150][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.152][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:15.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:15.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.223][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-10 00:30:15.244][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-10 00:30:15.246][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-10 00:30:15.293][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-10 00:30:15.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-10 00:30:15.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-10 00:30:15.336][biodb::testThat]
biodb.INFO [2024-06-10 00:30:15.338][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-06-10 00:30:15.349][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:15.351][biodb::testThat]
biodb.TRACE[2024-06-10 00:30:15.358][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 00:30:15.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 00:30:15.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:15.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:15.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:15.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:15.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:15.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:15.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:15.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:15.565][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:15.583][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:15.587][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-10 00:30:15.589][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:15.603][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-10 00:30:15.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:15.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:15.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:15.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:15.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:15.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:15.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:15.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:15.722][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:15.741][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:15.744][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-10 00:30:15.757][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:15.760][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-10 00:30:15.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:15.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:15.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:15.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:15.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:15.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:15.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:15.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:15.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:15.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:15.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:15.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:15.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:15.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:15.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:15.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:15.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:15.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:15.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:16.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:16.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:16.029][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-10 00:30:16.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:16.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:16.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:16.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:16.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:16.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:16.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:16.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.147][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:16.149][private$selectFields]
biodb.TRACE[2024-06-10 00:30:16.151][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:16.164][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:16.166][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:16.174][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.179][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.203][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.206][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.212][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.231][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.233][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:16.235][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:16.256][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.264][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.273][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:16.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.349][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-10 00:30:16.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:16.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:16.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:16.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:16.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:16.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:16.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:16.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.423][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:16.425][private$selectFields]
biodb.TRACE[2024-06-10 00:30:16.427][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:16.447][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:16.449][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:16.451][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.454][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.470][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.472][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.475][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.492][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.494][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:16.497][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:16.508][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.513][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.518][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.528][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:16.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.589][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-10 00:30:16.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:16.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:16.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:16.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:16.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:16.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:16.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:16.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:16.715][private$selectFields]
biodb.TRACE[2024-06-10 00:30:16.717][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:16.719][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:16.728][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:16.731][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.733][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.738][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.747][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.750][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.755][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:16.760][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:16.776][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.788][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.804][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:16.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:16.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.889][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-10 00:30:16.893][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-10 00:30:16.911][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-10 00:30:16.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:16.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:16.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:16.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:16.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:16.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:17.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:17.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:17.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:17.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:17.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:17.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:17.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:17.121][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:17.141][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:17.144][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-10 00:30:17.147][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:17.162][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-10 00:30:17.170][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:17.190][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:17.206][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-10 00:30:17.209][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:17.213][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-10 00:30:17.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:17.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:17.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:17.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:17.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:17.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:17.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:17.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:17.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:17.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:17.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:17.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:17.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:17.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:17.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:17.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:17.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:17.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:17.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:17.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:17.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:17.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:17.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:17.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:17.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:17.620][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-10 00:30:17.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:17.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:17.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:17.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:17.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:17.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:17.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:17.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:17.728][private$selectFields]
biodb.TRACE[2024-06-10 00:30:17.731][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:17.733][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:17.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:17.749][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.752][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.756][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.772][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.775][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.779][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.795][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:17.797][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:17.799][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.818][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.820][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:17.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.886][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-10 00:30:17.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:17.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:17.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:17.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:17.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:17.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:17.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:17.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:17.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:17.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:17.997][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:17.999][private$selectFields]
biodb.TRACE[2024-06-10 00:30:18.001][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:18.014][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:18.017][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:18.021][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.025][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.045][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.047][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.050][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.066][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.068][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:18.070][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:18.072][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.088][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.092][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.094][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:18.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.178][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-10 00:30:18.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:18.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:18.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:18.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:18.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:18.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:18.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:18.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.271][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:18.285][private$selectFields]
biodb.TRACE[2024-06-10 00:30:18.288][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:18.291][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:18.293][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:18.295][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.314][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.316][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.332][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.337][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.339][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:18.355][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:18.358][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.360][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.380][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.383][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:18.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:18.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.455][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-10 00:30:18.460][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-10 00:30:18.477][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-10 00:30:18.519][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-10 00:30:18.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-10 00:30:18.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-10 00:30:18.547][biodb::testThat]
biodb.INFO [2024-06-10 00:30:18.563][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-06-10 00:30:18.565][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:18.568][biodb::testThat]
biodb.TRACE[2024-06-10 00:30:18.597][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 00:30:18.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 00:30:18.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:18.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:18.728][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:18.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:18.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:18.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:18.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:18.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:18.778][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:18.798][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:18.812][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-10 00:30:18.815][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:18.818][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-10 00:30:18.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:18.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:18.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:18.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:18.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:18.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:18.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:18.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:18.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:18.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:18.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:18.997][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:19.017][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:19.031][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-10 00:30:19.034][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:19.037][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-10 00:30:19.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:19.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:19.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:19.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:19.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:19.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:19.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:19.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:19.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:19.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:19.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:19.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:19.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:19.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:19.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:19.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:19.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:19.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:19.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:19.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:19.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:19.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:19.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:19.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:19.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:19.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:19.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:19.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:19.288][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-10 00:30:19.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:19.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:19.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:19.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:19.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:19.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:19.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:19.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.418][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:19.420][private$selectFields]
biodb.TRACE[2024-06-10 00:30:19.422][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:19.424][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:19.441][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:19.443][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.446][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.462][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.465][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.467][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.471][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.485][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:19.487][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:19.490][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.504][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.509][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.511][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:19.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.578][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-10 00:30:19.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:19.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:19.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:19.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:19.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:19.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:19.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:19.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.685][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:19.688][private$selectFields]
biodb.TRACE[2024-06-10 00:30:19.735][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:19.738][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:19.740][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:19.742][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.744][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.761][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.763][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.765][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.779][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.781][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:19.783][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:19.785][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.817][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.821][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.828][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:19.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:19.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:19.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:19.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.016][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-10 00:30:20.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:20.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:20.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:20.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:20.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:20.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:20.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:20.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.147][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:20.149][private$selectFields]
biodb.TRACE[2024-06-10 00:30:20.151][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:20.153][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:20.166][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:20.168][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.170][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.174][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.187][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.195][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.210][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:20.212][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:20.215][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.218][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.234][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.237][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:20.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:20.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.313][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-10 00:30:20.316][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-10 00:30:20.318][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-10 00:30:20.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:20.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:20.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:20.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:20.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:20.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:20.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:20.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:20.640][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:20.660][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:20.664][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-10 00:30:20.679][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:20.682][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-10 00:30:20.697][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:20.704][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:20.719][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-10 00:30:20.723][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:20.738][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-10 00:30:20.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:20.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:20.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:20.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:20.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:20.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:20.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:20.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:20.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:20.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:20.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:20.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:20.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:20.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:20.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:20.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:20.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:20.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:20.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:21.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:21.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:21.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:21.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:21.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:21.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:21.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:21.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:21.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:21.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:21.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:21.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:21.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:21.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:21.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:21.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:21.163][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-10 00:30:21.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:21.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:21.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:21.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:21.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:21.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:21.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:21.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.267][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:21.281][private$selectFields]
biodb.TRACE[2024-06-10 00:30:21.284][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:21.286][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:21.288][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:21.306][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.308][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.314][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.331][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.334][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.338][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.353][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:21.355][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:21.359][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.361][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.382][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.385][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:21.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.489][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-10 00:30:21.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:21.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:21.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:21.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:21.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:21.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:21.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:21.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.593][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:21.596][private$selectFields]
biodb.TRACE[2024-06-10 00:30:21.598][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:21.600][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:21.602][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:21.614][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.617][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.623][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.637][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.641][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.658][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.660][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:21.663][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:21.666][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.683][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.687][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.690][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:21.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.762][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-10 00:30:21.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:21.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:21.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:21.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:21.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:21.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:21.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:21.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.865][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:21.878][private$selectFields]
biodb.TRACE[2024-06-10 00:30:21.881][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-10 00:30:21.884][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-10 00:30:21.886][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:21.906][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.911][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.916][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.930][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.933][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.937][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.950][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:21.952][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-10 00:30:21.955][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.957][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.974][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:21.976][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-10 00:30:21.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:21.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:21.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:22.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:22.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:22.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:22.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:22.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:22.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:22.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:22.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:22.055][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-10 00:30:22.057][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-10 00:30:22.059][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-10 00:30:22.162][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-10 00:30:22.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-10 00:30:22.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:22.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-10 00:30:22.202][biodb::testThat]
biodb.INFO [2024-06-10 00:30:22.204][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-06-10 00:30:22.207][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:22.209][biodb::testThat]
biodb.DEBUG[2024-06-10 00:30:22.222][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-06-10 00:30:22.225][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:30:22.229][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-06-10 00:30:22.243][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-10 00:30:22.246][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-10 00:30:22.258][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:30:22.261][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-10 00:30:22.263][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-10 00:30:22.266][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-10 00:30:22.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:22.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:22.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:22.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:22.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:22.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:22.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:22.338][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2024-06-10 00:30:22.359][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-10 00:30:22.361][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-10 00:30:22.364][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2024-06-10 00:30:22.776][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2024-06-10 00:30:23.161][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-10 00:30:23.166][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2024-06-10 00:30:23.206][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2024-06-10 00:30:23.213][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2024-06-10 00:30:23.217][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-10 00:30:23.220][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:30:23.223][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:30:23.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:23.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:23.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:23.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:23.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:23.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:23.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:23.293][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:23.296][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:23.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.302][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:23.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:23.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.328][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:30:23.331][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:30:23.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.347][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.351][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:30:23.354][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:30:23.368][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.370][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.374][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:30:23.387][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:30:23.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.393][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.406][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:30:23.409][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:30:23.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.415][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.432][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:23.435][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:23.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.454][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.458][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:30:23.461][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:23.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.479][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.482][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:23.497][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:23.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.502][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.516][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:23.520][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:23.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.536][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.545][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:30:23.547][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:30:23.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.564][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.568][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:30:23.582][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:30:23.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.588][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:23.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:23.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:23.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:23.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:23.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:23.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:23.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:23.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:23.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:23.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:23.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:23.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:23.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:23.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:23.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:23.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:23.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:23.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:23.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:23.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:23.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:23.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:23.820][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-06-10 00:30:23.822][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-06-10 00:30:23.865][biodb::testThat]
biodb.INFO [2024-06-10 00:30:23.879][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-06-10 00:30:23.883][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:23.885][biodb::testThat]
biodb.DEBUG[2024-06-10 00:30:23.932][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-06-10 00:30:23.935][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-06-10 00:30:23.938][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-06-10 00:30:23.952][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-06-10 00:30:23.965][cch$loadFileContent] file.exist = [3]: "FALSE, TRUE, TRUE".
biodb.TRACE[2024-06-10 00:30:23.979][loadFileContents] Loaded 2 files from cache: [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2024-06-10 00:30:23.982][conn$getEntryContent] 2 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:30:23.985][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-10 00:30:23.998][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-10 00:30:24.000][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-10 00:30:24.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:24.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:24.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:24.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:24.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:24.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:24.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:24.185][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2024-06-10 00:30:24.272][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-10 00:30:24.276][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-10 00:30:24.374][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2024-06-10 00:30:24.777][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2024-06-10 00:30:25.160][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-10 00:30:25.164][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2024-06-10 00:30:25.172][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.TRACE[2024-06-10 00:30:25.179][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml"
biodb.DEBUG[2024-06-10 00:30:25.183][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-10 00:30:25.186][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-06-10 00:30:25.189][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-06-10 00:30:25.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:25.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:25.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:25.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:25.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:25.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:25.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:25.219][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:25.221][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:25.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.225][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:25.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:25.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.237][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:30:25.240][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:30:25.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.244][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.247][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:30:25.249][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:30:25.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.254][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.257][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:30:25.259][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:30:25.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.263][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.266][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:30:25.268][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:30:25.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.273][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.276][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:25.279][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:25.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.283][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.286][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:30:25.288][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:25.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.293][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.305][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:25.310][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:25.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.314][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.323][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:25.325][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:25.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.330][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.337][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:30:25.340][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:30:25.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.345][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.358][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:30:25.360][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:30:25.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.375][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:25.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:25.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:25.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:25.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:25.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:25.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:25.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:25.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:25.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:25.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:25.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:25.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:25.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:25.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:25.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:25.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:25.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:25.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:25.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:25.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:25.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:25.590][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:25.592][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:25.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.607][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:25.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:25.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.630][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:30:25.634][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:30:25.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.649][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.652][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:30:25.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:30:25.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.671][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:30:25.674][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:30:25.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.678][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.684][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:30:25.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:30:25.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.694][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:30:25.696][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:30:25.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.700][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:30:25.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:30:25.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.727][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:30:25.730][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:30:25.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.734][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:30:25.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:30:25.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.766][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:25.768][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:25.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.773][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.786][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:25.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:25.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.804][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:30:25.806][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:25.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.811][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.820][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:30:25.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:25.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.832][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:25.834][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:25.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.839][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:25.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:25.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.865][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:25.867][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:25.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.872][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:25.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:25.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.907][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:30:25.910][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:30:25.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.915][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.925][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:30:25.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:30:25.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.941][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:30:25.943][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:30:25.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.947][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.957][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:30:25.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:30:25.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:25.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:25.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:25.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:25.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:25.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:25.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:26.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:26.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:26.079][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:26.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:26.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:26.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:26.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:26.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:26.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:26.136][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.139][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.154][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.213][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:30:26.230][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:30:26.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.235][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.248][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:30:26.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:30:26.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.266][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:30:26.268][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:30:26.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.285][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.288][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:30:26.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:30:26.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.314][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:30:26.316][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:30:26.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.331][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:30:26.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:30:26.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.388][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:30:26.391][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:30:26.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.397][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:30:26.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:30:26.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.432][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:26.435][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:26.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.439][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.454][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:26.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:26.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.475][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:30:26.489][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:26.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.494][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.498][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:30:26.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:26.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.518][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:26.530][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:26.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.534][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:26.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:26.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.560][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:26.574][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:26.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.578][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.581][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:26.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:26.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.600][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:30:26.613][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:30:26.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.619][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.622][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:30:26.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:30:26.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.656][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:30:26.660][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:30:26.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.665][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.682][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:30:26.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:30:26.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:26.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:26.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:26.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:26.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:26.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:26.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:26.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:26.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:26.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:26.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:27.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:27.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:27.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:27.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:27.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:27.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:27.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:27.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:27.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:27.047][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-06-10 00:30:27.049][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-06-10 00:30:27.051][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-06-10 00:30:27.132][biodb::testThat]
biodb.INFO [2024-06-10 00:30:27.135][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-06-10 00:30:27.137][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:27.139][biodb::testThat]
biodb.INFO [2024-06-10 00:30:27.261][biodb::testThat]
biodb.INFO [2024-06-10 00:30:27.274][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-06-10 00:30:27.277][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:27.279][biodb::testThat]
biodb.INFO [2024-06-10 00:30:27.321][biodb::testThat]
biodb.INFO [2024-06-10 00:30:27.324][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-06-10 00:30:27.326][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:27.341][biodb::testThat]
biodb.DEBUG[2024-06-10 00:30:27.348][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:27.357][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-10 00:30:27.360][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-10 00:30:27.365][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2024-06-10 00:30:27.849][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2024-06-10 00:30:28.429][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-10 00:30:28.434][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2024-06-10 00:30:28.443][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2024-06-10 00:30:28.472][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:28.475][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:28.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:28.479][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:28.481][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:28.483][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:28.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:28.487][ef$get] fields variable is a list.
biodb.INFO [2024-06-10 00:30:28.489][biodb::testThat]
biodb.INFO [2024-06-10 00:30:28.491][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2024-06-10 00:30:28.492][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:28.494][biodb::testThat]
biodb.ERROR[2024-06-10 00:30:28.532][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-06-10 00:30:28.603][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-06-10 00:30:28.665][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-10 00:30:28.667][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-10 00:30:28.681][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-10 00:30:28.683][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-10 00:30:28.685][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:28.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:28.690][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:28.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:28.703][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:28.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-10 00:30:28.761][biodb::testContext]
biodb.INFO [2024-06-10 00:30:28.764][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 00:30:28.767][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-06-10 00:30:28.769][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 00:30:28.782][biodb::testContext]
biodb.INFO [2024-06-10 00:30:28.789][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-06-10 00:30:28.803][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-10 00:30:28.813][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 00:30:28.824][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-10 00:30:28.826][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-10 00:30:28.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:28.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:28.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:28.845][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-10 00:30:28.847][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-10 00:30:28.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:28.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:28.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:28.866][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-10 00:30:28.870][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-10 00:30:28.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:28.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:28.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:28.890][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-10 00:30:28.893][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-10 00:30:28.895][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-10 00:30:28.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:28.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:28.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:28.914][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-10 00:30:28.928][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-10 00:30:28.930][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-10 00:30:28.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:28.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:28.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:28.952][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-10 00:30:28.955][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-10 00:30:28.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:28.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:28.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:28.975][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-10 00:30:28.978][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-10 00:30:28.989][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-10 00:30:28.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:28.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:28.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:29.009][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-10 00:30:29.012][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-10 00:30:29.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:29.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:29.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:29.032][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-10 00:30:29.072][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-10 00:30:29.075][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-10 00:30:29.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:29.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:29.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:29.096][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-10 00:30:29.099][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-10 00:30:29.102][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-10 00:30:29.104][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-10 00:30:29.118][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-10 00:30:29.121][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-10 00:30:29.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:29.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:29.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:29.140][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-10 00:30:29.143][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-10 00:30:29.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:29.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:29.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:29.161][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-10 00:30:29.164][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-10 00:30:29.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:29.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:29.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:29.183][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-10 00:30:29.193][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-10 00:30:29.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:29.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:29.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:29.223][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-10 00:30:29.228][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-10 00:30:29.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:29.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:29.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:29.250][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-10 00:30:29.253][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-10 00:30:29.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:29.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:29.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:29.276][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-10 00:30:29.278][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-10 00:30:29.339][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-10 00:30:29.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:29.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:29.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:29.360][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-10 00:30:29.364][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-10 00:30:29.368][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-10 00:30:29.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:29.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:29.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:29.391][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-10 00:30:29.406][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:29.409][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-10 00:30:29.411][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.414][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:29.430][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.432][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:29.435][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:29.447][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:30:29.450][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 00:30:29.453][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:29.456][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.470][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-10 00:30:29.472][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:29.475][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:29.489][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.491][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 00:30:29.491][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 00:30:29.491][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 00:30:29.491][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 00:30:29.491][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 00:30:29.494][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:30:29.497][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:29.510][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:29.513][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:29.517][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:29.519][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:29.536][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:29.539][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:29.542][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:29.555][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:29.558][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:29.561][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:29.574][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-10 00:30:29.580][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:29.583][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 00:30:29.596][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.598][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:29.601][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.616][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:29.619][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:29.622][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:30:29.625][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 00:30:29.639][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:29.642][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.645][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-10 00:30:29.658][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:29.661][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:29.665][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.678][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 00:30:29.678][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 00:30:29.678][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 00:30:29.678][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 00:30:29.678][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 00:30:29.681][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:30:29.686][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:29.699][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:29.702][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:29.705][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:29.707][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:29.725][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:29.728][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:29.731][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:29.734][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:29.748][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:29.751][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:29.754][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-10 00:30:29.771][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.774][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-10 00:30:29.790][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.794][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:29.797][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.801][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:29.815][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:29.818][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:30:29.821][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 00:30:29.837][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:29.840][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:29.843][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-10 00:30:29.858][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:29.861][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:29.866][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.881][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:29.884][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:30:29.887][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:29.890][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:29.903][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:29.906][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:29.909][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:29.923][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:29.926][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:29.929][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:29.932][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:29.947][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:29.950][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:29.954][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-10 00:30:29.972][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.975][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 00:30:29.978][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.992][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:29.995][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:29.998][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:30.019][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:30.022][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:30:30.025][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 00:30:30.039][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:30.042][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:30.045][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-10 00:30:30.048][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:30.062][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:30.065][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:30.068][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:30.070][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:30:30.084][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:30.087][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:30.089][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:30.103][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:30.106][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:30.109][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:30.123][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:30.126][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:30.129][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:30.133][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:30.147][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:30.151][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 00:30:30.165][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:30.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:30.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:30.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:30.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:30.651][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-10 00:30:30.666][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-10 00:30:30.670][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-10 00:30:30.674][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-10 00:30:30.691][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-10 00:30:30.695][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-10 00:30:30.715][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-10 00:30:30.719][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-10 00:30:30.724][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-10 00:30:30.739][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-10 00:30:30.744][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 00:30:30.758][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-10 00:30:30.762][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-10 00:30:30.766][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-10 00:30:30.781][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-10 00:30:30.786][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-10 00:30:30.801][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-10 00:30:30.805][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-10 00:30:30.809][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-10 00:30:30.825][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-10 00:30:30.828][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-10 00:30:30.843][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-10 00:30:30.847][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-10 00:30:30.860][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-10 00:30:30.864][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-10 00:30:30.868][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-10 00:30:30.881][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-10 00:30:30.885][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-10 00:30:30.889][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-10 00:30:30.902][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-10 00:30:30.906][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-10 00:30:30.922][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-10 00:30:30.928][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-10 00:30:30.932][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-10 00:30:30.947][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-10 00:30:30.951][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-10 00:30:30.955][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-10 00:30:30.969][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-10 00:30:30.973][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-10 00:30:30.987][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-10 00:30:30.991][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-10 00:30:30.995][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-10 00:30:31.010][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-10 00:30:31.014][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-10 00:30:31.018][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-10 00:30:31.033][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-10 00:30:31.037][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-10 00:30:31.053][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-10 00:30:31.057][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-10 00:30:31.060][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-10 00:30:31.074][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-10 00:30:31.078][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-10 00:30:31.081][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-10 00:30:31.096][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-10 00:30:31.119][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-10 00:30:31.122][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-10 00:30:31.124][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-10 00:30:31.126][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-10 00:30:31.128][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-10 00:30:31.131][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-10 00:30:31.144][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-10 00:30:31.147][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-10 00:30:31.150][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-10 00:30:31.162][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-10 00:30:31.165][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-10 00:30:31.168][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-10 00:30:31.184][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-10 00:30:31.187][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-10 00:30:31.190][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-10 00:30:31.208][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-10 00:30:31.217][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-10 00:30:31.220][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-10 00:30:31.225][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-10 00:30:31.228][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-10 00:30:31.231][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-10 00:30:31.234][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-10 00:30:31.238][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-10 00:30:31.242][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-10 00:30:31.248][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-10 00:30:31.251][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-10 00:30:31.266][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-10 00:30:31.270][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-10 00:30:31.274][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-10 00:30:31.285][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-10 00:30:31.288][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-06-10 00:30:31.289][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 00:30:31.291][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.293][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:31.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:31.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:31.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:31.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:31.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:31.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:31.842][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-10 00:30:31.847][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-10 00:30:31.851][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:31.852][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-10 00:30:31.854][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:31.856][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:31.858][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:31.863][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:31.876][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:31.877][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-10 00:30:31.879][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-10 00:30:31.880][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:31.881][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:31.883][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-10 00:30:31.884][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:31.886][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-10 00:30:31.886][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-10 00:30:31.886][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-10 00:30:31.886][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-10 00:30:31.886][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-10 00:30:31.886][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-10 00:30:31.886][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-10 00:30:31.886][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-10 00:30:31.886][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-10 00:30:31.886][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-10 00:30:31.886][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-10 00:30:31.887][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:31.889][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 00:30:31.889][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 00:30:31.889][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 00:30:31.890][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-10 00:30:31.891][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:31.893][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:31.894][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:31.898][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:31.900][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:31.901][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:31.902][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-10 00:30:31.902][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-10 00:30:31.904][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:31.905][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:31.906][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:31.910][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-10 00:30:31.910][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-10 00:30:31.912][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-10 00:30:31.914][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 00:30:31.916][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-10 00:30:31.918][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-10 00:30:31.920][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-10 00:30:31.923][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-10 00:30:31.928][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-10 00:30:31.929][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-10 00:30:31.931][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-10 00:30:31.934][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-10 00:30:31.937][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 00:30:31.939][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 00:30:31.943][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-10 00:30:31.945][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-10 00:30:31.948][biodb::testThat]
biodb.INFO [2024-06-10 00:30:31.950][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2024-06-10 00:30:31.952][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:31.955][biodb::testThat]
biodb.DEBUG[2024-06-10 00:30:31.961][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-10 00:30:31.966][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:31.978][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-06-10 00:30:31.981][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:32.002][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-06-10 00:30:32.021][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:32.152][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:32.155][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-06-10 00:30:32.158][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:32.162][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-06-10 00:30:32.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:32.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:32.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:32.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:32.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:32.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:32.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:32.191][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:32.199][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:32.202][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-06-10 00:30:32.223][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:32.228][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-06-10 00:30:32.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:32.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:32.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:32.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:32.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:32.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:32.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:32.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:32.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:32.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:32.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:32.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:32.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:32.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:32.453][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:32.474][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:32.478][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-06-10 00:30:32.493][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:32.496][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-06-10 00:30:32.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:32.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:32.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:32.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:32.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:32.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:32.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:32.576][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:32.592][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:32.595][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-06-10 00:30:32.606][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:32.610][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-06-10 00:30:32.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:32.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:32.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:32.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:32.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:32.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:32.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:32.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:32.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:32.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:32.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:32.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:32.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:32.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:32.764][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:32.772][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:32.786][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-06-10 00:30:32.789][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:32.792][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-06-10 00:30:32.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:32.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:32.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:32.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:32.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:32.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:32.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:32.861][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:32.881][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:32.897][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-06-10 00:30:32.900][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:32.905][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-06-10 00:30:32.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:32.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:32.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:32.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:32.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:32.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:32.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:32.961][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:32.970][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:32.972][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2024-06-10 00:30:32.975][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:33.044][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2024-06-10 00:30:33.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:33.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:33.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:33.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:33.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:33.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:33.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-10 00:30:33.080][biodb::testThat]
biodb.INFO [2024-06-10 00:30:33.081][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2024-06-10 00:30:33.083][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:33.084][biodb::testThat]
biodb.DEBUG[2024-06-10 00:30:33.088][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:33.096][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-10 00:30:33.099][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-10 00:30:33.106][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-06-10 00:30:39.786][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-06-10 00:30:40.167][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-10 00:30:40.172][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2024-06-10 00:30:40.182][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2024-06-10 00:30:40.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:40.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:40.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:40.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:40.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:40.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:40.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:40.266][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:40.275][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-10 00:30:40.278][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-10 00:30:40.282][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-06-10 00:30:40.670][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-06-10 00:30:41.042][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-10 00:30:41.046][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2024-06-10 00:30:41.053][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2024-06-10 00:30:41.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:41.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:41.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:41.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:41.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:41.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-10 00:30:41.090][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-10 00:30:41.092][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-10 00:30:41.093][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-10 00:30:41.094][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-10 00:30:41.096][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:41.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:41.102][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:41.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:41.106][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-10 00:30:41.136][biodb::testContext]
biodb.INFO [2024-06-10 00:30:41.138][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 00:30:41.140][biodb::testContext] Test context - Test web services
biodb.INFO [2024-06-10 00:30:41.143][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 00:30:41.145][biodb::testContext]
biodb.INFO [2024-06-10 00:30:41.153][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-06-10 00:30:41.157][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-10 00:30:41.166][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 00:30:41.168][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-10 00:30:41.169][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-10 00:30:41.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.178][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-10 00:30:41.181][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-10 00:30:41.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.189][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-10 00:30:41.191][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-10 00:30:41.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.199][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-10 00:30:41.201][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-10 00:30:41.203][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-10 00:30:41.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.211][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-10 00:30:41.214][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-10 00:30:41.216][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-10 00:30:41.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.227][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-10 00:30:41.229][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-10 00:30:41.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.242][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-10 00:30:41.243][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-10 00:30:41.245][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-10 00:30:41.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.250][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-10 00:30:41.252][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-10 00:30:41.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.260][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-10 00:30:41.262][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-10 00:30:41.264][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-10 00:30:41.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.272][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-10 00:30:41.273][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-10 00:30:41.275][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-10 00:30:41.276][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-10 00:30:41.277][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-10 00:30:41.279][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-10 00:30:41.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.288][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-10 00:30:41.289][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-10 00:30:41.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.297][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-10 00:30:41.300][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-10 00:30:41.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.307][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-10 00:30:41.309][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-10 00:30:41.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.325][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-10 00:30:41.328][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-10 00:30:41.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.338][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-10 00:30:41.341][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-10 00:30:41.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.353][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-10 00:30:41.354][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-10 00:30:41.457][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-10 00:30:41.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.468][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-10 00:30:41.471][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-10 00:30:41.474][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-10 00:30:41.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:41.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:41.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:41.504][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-10 00:30:41.520][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:41.522][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-10 00:30:41.525][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:41.527][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:41.543][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:41.545][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:41.548][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:41.550][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:30:41.564][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 00:30:41.567][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:41.569][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:41.572][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-10 00:30:41.585][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:41.588][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:41.590][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:41.593][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 00:30:41.593][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 00:30:41.593][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 00:30:41.593][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 00:30:41.593][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 00:30:41.611][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:30:41.613][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:41.616][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:41.618][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:41.620][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:41.632][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:41.634][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:41.636][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:41.639][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:41.655][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:41.657][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:41.659][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:41.662][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-10 00:30:41.678][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:41.680][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 00:30:41.689][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:41.702][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:41.704][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:41.707][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:41.709][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:41.711][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:30:41.723][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 00:30:41.725][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:41.728][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:41.730][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-10 00:30:41.746][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:41.748][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:41.751][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:41.753][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 00:30:41.753][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 00:30:41.753][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 00:30:41.753][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 00:30:41.753][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 00:30:41.770][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:30:41.773][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:41.775][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:41.778][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:41.793][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:41.805][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:41.809][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:41.812][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:41.814][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:41.817][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:41.819][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:41.840][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:41.844][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-10 00:30:41.851][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:41.855][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-10 00:30:41.859][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:41.861][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:41.864][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:41.872][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:41.879][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:41.887][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:30:41.918][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 00:30:41.920][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:41.926][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:41.929][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-10 00:30:41.931][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:41.933][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:41.936][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:41.939][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:41.941][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:30:41.943][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:41.945][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:41.949][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:41.952][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:41.954][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:41.957][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:42.033][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:42.046][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:42.048][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:42.050][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:42.062][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:42.065][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-10 00:30:42.069][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:42.072][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 00:30:42.088][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:42.090][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:42.093][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:42.095][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:42.112][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:42.114][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:30:42.117][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 00:30:42.119][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:42.132][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:42.135][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-10 00:30:42.137][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:42.139][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:42.143][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:42.146][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:42.148][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:30:42.150][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:42.153][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:42.166][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:42.168][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:42.170][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:42.172][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:42.174][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:42.177][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:42.179][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:42.181][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:42.183][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:42.186][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 00:30:42.188][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:42.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:42.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:42.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:42.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:42.584][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-10 00:30:42.587][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-10 00:30:42.594][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-10 00:30:42.598][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-10 00:30:42.601][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-10 00:30:42.623][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-10 00:30:42.627][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-10 00:30:42.630][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-10 00:30:42.656][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-10 00:30:42.659][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-10 00:30:42.678][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 00:30:42.690][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-10 00:30:42.694][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-10 00:30:42.710][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-10 00:30:42.713][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-10 00:30:42.717][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-10 00:30:42.737][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-10 00:30:42.741][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-10 00:30:42.745][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-10 00:30:42.759][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-10 00:30:42.765][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-10 00:30:42.781][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-10 00:30:42.785][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-10 00:30:42.789][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-10 00:30:42.808][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-10 00:30:42.811][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-10 00:30:42.830][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-10 00:30:42.834][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-10 00:30:42.838][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-10 00:30:42.855][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-10 00:30:42.862][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-10 00:30:42.866][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-10 00:30:42.883][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-10 00:30:42.887][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-10 00:30:42.891][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-10 00:30:42.909][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-10 00:30:42.913][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-10 00:30:42.929][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-10 00:30:42.932][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-10 00:30:42.936][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-10 00:30:42.953][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-10 00:30:42.957][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-10 00:30:42.962][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-10 00:30:42.980][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-10 00:30:42.984][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-10 00:30:42.987][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-10 00:30:43.003][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-10 00:30:43.006][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-10 00:30:43.009][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-10 00:30:43.025][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-10 00:30:43.028][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-10 00:30:43.032][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-10 00:30:43.047][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-10 00:30:43.051][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-10 00:30:43.054][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-10 00:30:43.072][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-10 00:30:43.076][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-10 00:30:43.093][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-10 00:30:43.096][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-10 00:30:43.100][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-10 00:30:43.115][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-10 00:30:43.118][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-10 00:30:43.122][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-10 00:30:43.139][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-10 00:30:43.143][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-10 00:30:43.146][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-10 00:30:43.162][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-10 00:30:43.165][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-10 00:30:43.169][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-10 00:30:43.188][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-10 00:30:43.192][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-10 00:30:43.207][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-10 00:30:43.211][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-10 00:30:43.214][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-10 00:30:43.230][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-10 00:30:43.234][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-10 00:30:43.238][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-10 00:30:43.253][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-10 00:30:43.257][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-10 00:30:43.260][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-10 00:30:43.275][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-10 00:30:43.279][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-10 00:30:43.283][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-10 00:30:43.299][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-10 00:30:43.304][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-06-10 00:30:43.307][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 00:30:43.322][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.326][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:43.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:43.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:43.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:43.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:43.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:43.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:43.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:44.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:44.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:44.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:44.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:44.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:44.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:44.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:44.055][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-10 00:30:44.059][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-10 00:30:44.064][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:44.067][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-10 00:30:44.082][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:44.085][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:44.088][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:44.102][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:44.105][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:44.107][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-10 00:30:44.110][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-10 00:30:44.123][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:44.126][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:44.128][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-10 00:30:44.131][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:44.145][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-10 00:30:44.145][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-10 00:30:44.145][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-10 00:30:44.145][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-10 00:30:44.145][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-10 00:30:44.145][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-10 00:30:44.145][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-10 00:30:44.145][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-10 00:30:44.145][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-10 00:30:44.145][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-10 00:30:44.145][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-10 00:30:44.149][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:44.151][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 00:30:44.151][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 00:30:44.151][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 00:30:44.165][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-10 00:30:44.168][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:44.170][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:44.173][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:44.189][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:44.191][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:44.194][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:44.196][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-10 00:30:44.196][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-10 00:30:44.213][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:44.215][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:44.218][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:44.233][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-10 00:30:44.233][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-10 00:30:44.237][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-10 00:30:44.242][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 00:30:44.257][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-10 00:30:44.261][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-10 00:30:44.277][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-10 00:30:44.282][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-10 00:30:44.305][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-10 00:30:44.308][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-10 00:30:44.324][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-10 00:30:44.328][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-10 00:30:44.341][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 00:30:44.343][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 00:30:44.347][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-10 00:30:44.350][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-10 00:30:44.367][biodb::testThat]
biodb.INFO [2024-06-10 00:30:44.370][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-06-10 00:30:44.372][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:44.386][biodb::testThat]
biodb.DEBUG[2024-06-10 00:30:44.394][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-10 00:30:44.413][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:44.427][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-06-10 00:30:44.430][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:44.448][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-06-10 00:30:44.482][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:44.499][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-10 00:30:44.502][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-10 00:30:44.509][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-06-10 00:30:44.910][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-06-10 00:30:45.322][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-10 00:30:45.326][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2024-06-10 00:30:45.335][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2024-06-10 00:30:45.349][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-10 00:30:45.352][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-10 00:30:45.354][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-10 00:30:45.356][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-10 00:30:45.358][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:45.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:45.363][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:45.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:45.365][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-10 00:30:45.376][biodb::testContext]
biodb.INFO [2024-06-10 00:30:45.377][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 00:30:45.379][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-06-10 00:30:45.380][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 00:30:45.381][biodb::testContext]
biodb.INFO [2024-06-10 00:30:45.384][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-06-10 00:30:45.387][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-10 00:30:45.398][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 00:30:45.400][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-10 00:30:45.405][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-10 00:30:45.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.411][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-10 00:30:45.412][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-10 00:30:45.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.422][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-10 00:30:45.424][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-10 00:30:45.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.429][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-10 00:30:45.432][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-10 00:30:45.433][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-10 00:30:45.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.438][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-10 00:30:45.439][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-10 00:30:45.445][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-10 00:30:45.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.450][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-10 00:30:45.452][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-10 00:30:45.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.458][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-10 00:30:45.461][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-10 00:30:45.463][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-10 00:30:45.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.471][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-10 00:30:45.473][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-10 00:30:45.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.479][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-10 00:30:45.480][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-10 00:30:45.485][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-10 00:30:45.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.491][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-10 00:30:45.492][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-10 00:30:45.493][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-10 00:30:45.501][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-10 00:30:45.502][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-10 00:30:45.504][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-10 00:30:45.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.514][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-10 00:30:45.516][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-10 00:30:45.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.525][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-10 00:30:45.527][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-10 00:30:45.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.535][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-10 00:30:45.541][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-10 00:30:45.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.553][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-10 00:30:45.555][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-10 00:30:45.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.574][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-10 00:30:45.577][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-10 00:30:45.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.595][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-10 00:30:45.597][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-10 00:30:45.744][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-10 00:30:45.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.749][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-10 00:30:45.750][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-10 00:30:45.751][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-10 00:30:45.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:45.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:45.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:45.761][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-10 00:30:45.764][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:45.765][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-10 00:30:45.769][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.770][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:45.771][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.773][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:45.774][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:45.775][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:30:45.776][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 00:30:45.778][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:45.779][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.781][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-10 00:30:45.785][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:45.788][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:45.790][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.792][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 00:30:45.792][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 00:30:45.792][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 00:30:45.792][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 00:30:45.792][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 00:30:45.795][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:30:45.797][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:45.798][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:45.799][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:45.800][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:45.802][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:45.803][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:45.804][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:45.809][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:45.811][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:45.812][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:45.813][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:45.815][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-10 00:30:45.817][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:45.819][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 00:30:45.824][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.825][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:45.827][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.828][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:45.829][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:45.831][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:30:45.832][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 00:30:45.836][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:45.838][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.839][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-10 00:30:45.840][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:45.842][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:45.843][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.844][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 00:30:45.844][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 00:30:45.844][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 00:30:45.844][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 00:30:45.844][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 00:30:45.846][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:30:45.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:45.866][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:45.868][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:45.869][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:45.870][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:45.871][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:45.873][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:45.874][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:45.875][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:45.895][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:45.896][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:45.899][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-10 00:30:45.901][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.906][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-10 00:30:45.907][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.909][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:45.910][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.911][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:45.913][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:45.914][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:30:45.915][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 00:30:45.918][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:45.920][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:45.936][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-10 00:30:45.938][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:45.941][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:45.943][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.947][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:45.949][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:30:45.966][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:45.968][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:45.969][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:45.971][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:45.972][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:45.973][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:45.974][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:45.981][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:45.983][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:45.985][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:45.987][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:45.989][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-10 00:30:45.993][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:45.998][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 00:30:46.001][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:46.003][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:46.005][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:46.011][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:46.014][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:46.016][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 00:30:46.018][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 00:30:46.020][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:46.027][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:46.029][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-10 00:30:46.031][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:46.035][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:46.040][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:46.042][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:46.044][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 00:30:46.046][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:46.048][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:46.054][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:46.057][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:46.059][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:46.061][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:46.066][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:46.069][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:46.071][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:46.073][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:46.075][self$setPropertyValue]
biodb.DEBUG[2024-06-10 00:30:46.081][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 00:30:46.083][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:46.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:46.350][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-10 00:30:46.354][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-10 00:30:46.374][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-10 00:30:46.378][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-10 00:30:46.381][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-10 00:30:46.385][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-10 00:30:46.402][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-10 00:30:46.406][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-10 00:30:46.410][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-10 00:30:46.418][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-10 00:30:46.422][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 00:30:46.426][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-10 00:30:46.432][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-10 00:30:46.435][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-10 00:30:46.453][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-10 00:30:46.456][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-10 00:30:46.460][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-10 00:30:46.474][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-10 00:30:46.478][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-10 00:30:46.481][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-10 00:30:46.490][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-10 00:30:46.494][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-10 00:30:46.498][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-10 00:30:46.510][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-10 00:30:46.513][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-10 00:30:46.524][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-10 00:30:46.528][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-10 00:30:46.532][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-10 00:30:46.564][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-10 00:30:46.567][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-10 00:30:46.570][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-10 00:30:46.593][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-10 00:30:46.597][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-10 00:30:46.613][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-10 00:30:46.629][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-10 00:30:46.633][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-10 00:30:46.636][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-10 00:30:46.640][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-10 00:30:46.643][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-10 00:30:46.647][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-10 00:30:46.651][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-10 00:30:46.655][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-10 00:30:46.660][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-10 00:30:46.665][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-10 00:30:46.677][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-10 00:30:46.693][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-10 00:30:46.697][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-10 00:30:46.703][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-10 00:30:46.707][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-10 00:30:46.710][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-10 00:30:46.735][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-10 00:30:46.739][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-10 00:30:46.742][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-10 00:30:46.748][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-10 00:30:46.750][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-10 00:30:46.754][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-10 00:30:46.762][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-10 00:30:46.766][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-10 00:30:46.769][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-10 00:30:46.775][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-10 00:30:46.778][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-10 00:30:46.781][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-10 00:30:46.794][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-10 00:30:46.798][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-10 00:30:46.801][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-10 00:30:46.817][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-10 00:30:46.820][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-10 00:30:46.834][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-10 00:30:46.838][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-10 00:30:46.841][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-10 00:30:46.854][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-10 00:30:46.857][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-10 00:30:46.861][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-10 00:30:46.877][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-10 00:30:46.881][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-10 00:30:46.884][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-10 00:30:46.891][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-10 00:30:46.895][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-10 00:30:46.898][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-10 00:30:46.914][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-10 00:30:46.917][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-10 00:30:46.920][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-10 00:30:46.926][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-10 00:30:46.930][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-10 00:30:46.943][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-06-10 00:30:46.956][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 00:30:46.958][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:46.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:46.995][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:46.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 00:30:47.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.423][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-10 00:30:47.431][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-10 00:30:47.436][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:47.438][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-10 00:30:47.440][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:47.442][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 00:30:47.445][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:47.446][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 00:30:47.448][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:47.451][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-10 00:30:47.455][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-10 00:30:47.459][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 00:30:47.461][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:47.463][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-10 00:30:47.465][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 00:30:47.467][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-10 00:30:47.467][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-10 00:30:47.467][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-10 00:30:47.467][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-10 00:30:47.467][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-10 00:30:47.467][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-10 00:30:47.467][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-10 00:30:47.467][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-10 00:30:47.467][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-10 00:30:47.467][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-10 00:30:47.467][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-10 00:30:47.469][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-10 00:30:47.471][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 00:30:47.471][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 00:30:47.471][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 00:30:47.474][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-10 00:30:47.477][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:47.480][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:47.482][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 00:30:47.484][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 00:30:47.486][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 00:30:47.488][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 00:30:47.490][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-10 00:30:47.490][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-10 00:30:47.492][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 00:30:47.495][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 00:30:47.497][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-10 00:30:47.499][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-10 00:30:47.499][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-10 00:30:47.511][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-10 00:30:47.515][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 00:30:47.517][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-10 00:30:47.519][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-10 00:30:47.523][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-10 00:30:47.533][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-10 00:30:47.541][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-10 00:30:47.544][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-10 00:30:47.547][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-10 00:30:47.550][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-10 00:30:47.553][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 00:30:47.554][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 00:30:47.556][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-10 00:30:47.557][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-10 00:30:47.561][biodb::testThat]
biodb.INFO [2024-06-10 00:30:47.563][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-06-10 00:30:47.565][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 00:30:47.567][biodb::testThat]
biodb.DEBUG[2024-06-10 00:30:47.574][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-10 00:30:47.594][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:47.598][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-06-10 00:30:47.601][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:47.612][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-06-10 00:30:47.631][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-06-10 00:30:47.638][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-10 00:30:47.652][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-06-10 00:30:47.655][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 00:30:47.658][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-06-10 00:30:47.669][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-06-10 00:30:47.671][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-10 00:30:47.675][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-06-10 00:30:47.678][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-10 00:30:47.681][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-10 00:30:47.684][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 00:30:47.686][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-10 00:30:47.688][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-10 00:30:47.690][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-10 00:30:47.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:47.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:47.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:47.725][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:47.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:47.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:47.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 00:30:47.743][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2024-06-10 00:30:47.749][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-10 00:30:47.752][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-10 00:30:47.755][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2024-06-10 00:30:48.147][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2024-06-10 00:30:48.820][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-10 00:30:48.847][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2024-06-10 00:30:48.856][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2024-06-10 00:30:48.863][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2024-06-10 00:30:48.868][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-10 00:30:48.871][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-10 00:30:48.874][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-10 00:30:48.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 00:30:48.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:48.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:48.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:48.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:48.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:48.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 00:30:48.914][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:48.917][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:48.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:48.921][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:48.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:48.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:48.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:48.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:48.959][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:30:48.961][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:30:48.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:48.976][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:48.979][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-10 00:30:48.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-10 00:30:48.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:48.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.001][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:30:49.004][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:30:49.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.023][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.026][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 00:30:49.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 00:30:49.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.046][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 00:30:49.049][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 00:30:49.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.065][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.068][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 00:30:49.084][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 00:30:49.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.088][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.092][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:49.108][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:49.111][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.113][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.116][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:49.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 00:30:49.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.140][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:30:49.156][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:49.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.162][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.176][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-10 00:30:49.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-10 00:30:49.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.200][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:49.202][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:49.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.220][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:49.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 00:30:49.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.249][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:49.252][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:49.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.271][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.275][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 00:30:49.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 00:30:49.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.300][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:30:49.312][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:30:49.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.318][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.321][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-10 00:30:49.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-10 00:30:49.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.344][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:30:49.359][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:30:49.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.363][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.366][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 00:30:49.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 00:30:49.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:49.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:49.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:49.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:49.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:49.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:49.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 00:30:49.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 00:30:49.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:49.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:49.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:49.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:49.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:49.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:49.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:49.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:49.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:49.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:49.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 00:30:49.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 00:30:49.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 00:30:49.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 00:30:49.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 00:30:49.645][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-06-10 00:30:49.670][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-10 00:30:49.686][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-10 00:30:49.689][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-10 00:30:49.692][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-10 00:30:49.694][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 00:30:49.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 00:30:49.711][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 00:30:49.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 00:30:49.716][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 00:30:49.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 361 ]
> 
> proc.time()
   user  system elapsed 
 37.413   2.064  93.304

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

name	user	system	elapsed
ChebiConn	4.760	1.230	13.521
ChebiEntry	0.813	0.025	0.865